南極大陸ラングホブデ：極域生態系における微生物進化適応

今朝、久しぶりにJAMSTECの高野博士にお会いいたしました。低温科学研究所で開催されている研究集会に参加されているとのこと。本当に懐かしい限りです。

つい先日、南極大陸ラングホブデから単離した微生物のゲノムに関する論文が受理されたばかりでしたので、彼との再会は一層嬉しく感じられました。

2006年１月末、昭和基地からおよそ37km離れた露岩地帯ラングホブデで研究観測を行いました。メンバーは総勢３名で、高野さんと環境省の桝厚生さん。約２週間、彼らと楽しく、かつ充実した日々。



ラングホブデは、南極特別保護地区に指定され、立ち入りが制限されています。許可を得て研究観測を進めていたところ、思わぬ発見が多々ありました。



その一つが、赤雪現象です。帰国後、高野さんの窒素安定同位体比の解析結果は驚くものでありました。微生物群衆構造解析、赤雪藻類の色素分析等の結果を含めて、発表した論文は下記の通り。

*. Masanaori Fujii, Yoshinori Takano, Hisaya Kojima, Tamotsu Hoshino, Ryoichi Tanaka and Manabu Fukui. Microbial community structure, pigment composition, and nitrogen source of red snow in Antarctica. Microbial Ecology 59: 466-4775.2010.

今回、ラングホブデの観測小屋近くで採取した海洋沿岸堆積物から発見した新規微生物ですが、まだ未記載です。ゲノム解析が進み、先に発表することになりました。きっと、この菌のゲノム情報は、南極海洋生態系において微生物の進化・環境適応を解明する上で重要になると思われます。



*. Miho Watanabe , Hisaya Kojima and Manabu Fukui. Complete genome sequence of Marinifilacea bacterium strain SPP2, isolated from Antarctic marine sediment. Marine Genomics: in press

研究論文update170628

【2017年以降】

*. Miho Watanabe , Hisaya Kojima and Manabu Fukui. Complete genome sequence of Marinifilacea bacterium strain SPP2, isolated from Antarctic marine sediment. Marine Genomics: in press

*. Hisaya Kojima, Miho Watanabe and Manabu Fukui. Sulfurivermis fontis gen. nov., sp. nov., a novel sulfur-oxidizing autotroph, and proposal of Thioprofundaceae fam. nov. International Journal of Systematic and Evolutionary Microbiology . in press

*. Tomohiro Watanabe, Aya Miura, Tomoya Iwata, Hisaya Kojima and Manabu Fukui. Dominance of Sulfuritalea species in nitrate-depleted water of a stratified freshwater lake and arsenate respiration ability within the genus. Environmental Microbiology Reports : . In press.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of Desulfoplanes formicivorans Pf12BT, a sulfate-reducing bacterium of the family Desulfomicrobiaceae. Standards in Genomic Sciences: in press. DOI:

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfosarcina widdelii sp. nov. and Desulfosarcina alkanivorans sp. nov., hydrocarbon-degrading sulfate-reducing bacteria isolated from marine sediment and emended description of the genus Desulfosarcina. International Journal of Systematic and Evolutionary Microbiology : in press. DOI:

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfocucumis palustris gen. nov., sp. nov., a mesophilic sulfate reducer belonging to the Desulfotomaculum subcluster Ig. International Journal of Systematic and Evolutionary Microbiology : in press. DOI:

*. Hisaya Kojima, Miho Watanabe, and Manabu Fukui. Sulfuritortus calidifontis gen. nov., sp. nov., a novel sulfur oxidizer isolated from a hot spring microbial mat. International Journal of Systematic and Evolutionary Microbiology : in press. DOI: 10.1099/ijsem.0.001813


【2016年】

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui.Identity of major sulfur cycle prokaryotes in freshwater lake ecosystems revealed by a comprenensive phylogenetic study of the dissimilatory adenylylsulfate reductase. Scientific Reports 6: 36262. 2016.

*. Kazuhiro Umezawa, Tomohiro Watanabe, Aya Miura, Hisaya Kojima and Manabu Fukui. The complete genome sequences of sulfur-oxidizing gammaproteobacteria Sulfurifustis variabilis skN76T and Sulfuricaulis limicola HA5T. Standards in Genomic Sciences 11: 71. 2016.

*. Hisaya Kojima, Miho Watanabe, Riho Tokizawa, Arisa Shinohara and Manabu Fukui. Hymenobacter nivis sp. nov., isolated from red snow in Antarctica. International Journal of Systematic and Evolutionary Microbiology 66: 4821-4825. 2016. DOI: 10.1099/ijsem.0.001435

*. Yuki Kobayashi, Hisaya Kojima, Masayuki Itoh, Noboru Okuda, Manabu Fukui and Fuh-Kwo Shiah. Abundance of planktonic methane-oxidizing bacteria in a subtropical reservoir. Plankton and Benthos Research 11: 144-146.2016. DOI: 10.3800/pbr.11.144

*. Hisaya Kojima and Manabu Fukui. Sulfuriflexus mobilis gen. nov., sp. nov., a sulfur-oxidizing bacterium isolated from a brackish lake sediment. International Journal of Systematic and Evolutionary Microbiology 66: 3515-3518.2016. doi: 10.1099/ijsem.0.001227

*. Rachel Rudd, Jonathan Tyler, John Tibby, Yusuke Yokoyama, Ines Tavernier, Elie Verleyen, Manabu Fukui and Yoshinori Takano. A diatom inferred of lake hydrological variability during the last 900 years in Luetzow-Holm Bay, East Antarctica. Journal of Quaternary Science 31: 114-125. 2016. DOI: 10.1002/jqs.2845


*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Sulfuriferula thiophila sp. nov., a chemolithoautotrophic sulfur-oxidizing bacterium, and correction of the name Sulfuriferula plumbophilus Watanabe, Kojima and Fukui 2015 to Sulfuriferula plumbophila corrig.　International Journal of Systematic and Evolutionary Microbiology 66: 2041-2045.2016. Doi: 10.1099/ijsem.0.000988.

*. Masanori Fujii, Toshihide Hirao, Hisaya Kojima and Manabu Fukui. Planktonic bacterial communities in mountain lake ecosystems. In: Structure and Function of Mountain Ecosystems in Japan. 145-169.Springer. 2016.

*. Tomoya Iwata, Naoki Mochizuki, Takao Suzuki, Ayato Kohzu, Hisaya Kojima, Manabu Fukui and Jotaro Urabe. Roles of terrestrial carbon subsidies to aquatic community metabolism in mountain lake ecosystems. In: Structure and Function of Mountain Ecosystems in Japan. 115-144. Springer. 2016.

*. Tomohiro Watanabe, Aya Miura, Arisa Shinohara, Hisaya Kojima and Manabu Fukui. Thermithiobacillus plumbiphilus sp. nov., a sulfur-oxidizing bacterium isolated from lead sulfide.　International Journal of Sysytematic and Evolutionary Microbiology 66: 1986-1989.2016. Doi: 10.1099/ijsem.0.000972.

*. Hisaya Kojima, Kazuhiro Umezawa and Manabu Fukui. Caldimicrobium thiodismutans sp. nov., a sulfur-disproportionating bacterium isolated from a hot spring, and emended description of the genus Caldimicrobium. International Journal of Systematics and Evolutionary Microbiology 66: 1828-1831.2016. Doi: 10.1099/ijsem.0.000947.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Complete genome sequence and cell structure of Limnochorda pilosa, a Gram negative spore former whithin the phylum Firmicutes. International Journal of Systematic and Evolutionary Microbiology 66: 1330-1339. 2016. Doi:10.1099/ijsem.0.000881.

*. Hisaya Kojima, Tomohiro Watanabe and Manabu Fukui. Sulfuricaulis limicola gen. nov., sp. nov., a novel sulfur oxidizer from a lake. International Journal of Systematic and Evolutionary Microbiology 66: 266-270. 2016. Doi: 10.1099/ijsem.0.000709.

*. Tomohiro Watanabe, Hisaya Kojima, Arisa Shinohara and Manabu Fukui. Sulfurirhabdus autotrophica gen. nov., sp. nov., isolated from a freshwater lake.　International Journal of Systematic and Evolutionary Microbiology 66: 113-117.2016. Doi: 10.1099/ijsem.0.000679.


【2015年】

*. Yuriko Higashioka, Hisaya Kojima, Tomohiro Watanabe and Manabu Fukui. Draft genome sequence of Desulfatitalea tepidiphila S28bFT. Genome Announcements 3: e01326-15. 2015.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of Mizugakiibacter sediminis skMP5T. Genome Announcements 3: e01185-15. 2015.

*. Ikumi Oyabu, Yoshinori Iizuka, Hubertus Fischer, Simon Schüpbach, Gideon Gfeller, Anders Svensson, Manabu Fukui, Jørgen Peder Steffensen, and Margareta Hansson. Chemical compositions of solid particles present in the Greenland NEEM ice core over the last 110,000 years. Journal of Geophysical Research-Atmospheres 120: 9789-9813.2015. DOI: 10.1002/2015JD023290

*. Hisaya Kojima, Arisa Shinohara and Manabu Fukui. Sulfurifustis variabilis gen. nov., sp. nov., a novel sulfur oxidizer isolated from a lake, and proposal of Acidiferrobacteraceae fam. nov. and Acidiferrobacterales ord. nov. International Journal of Systematic and Evolutionary Microbiology 65: 3709-3713.2015. Doi:10.1099/ijsem.0.000479

*. Masayuki Itoh, Yuki Kobayashi, Tzong-Yueh Chen, Takeshi Tokida, Manabu Fukui, Hisaya Kojima, Takeshi Miki, Ichiro Tayasu, Fuh-Kwo Shiah and Noboru Okuda. Effect of inter-annual variation in winter vertical mixing on CH4 dynamics in a subtropical reservoir. Journal of Geophysics Research-Biogeoscience 120: 1246-1261. 2015.

*. Masanori Fujii, Toshihide Hirao, Hisaya Kojima and Manabu Fukui. Inter-taxonomic differences in bacterioplankton community assembly in oligotrophic mountain lakes of east Japan. Aquatic Microbial Ecology 75: 251-257. 2015.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of a sulfur-oxidizing autotroph, Sulfuricella sp. strain T08, isolated from a freshwater lake. Genome Announcements 3: e00498-15. 2015.

*. Miho Watanabe, Hisaya Kojima, Manabu Fukui. Limnochorda pilosa gen. nov., sp. nov., a moderately thermophilic, facultative anaerobic pleomorphic bacterium and proposal of Limnochordaceae fam. nov., Limnochordales ord. nov. and Limnochordia classis nov. in the phylum Firmicutes. International Journal of Systematic and Evolutionary Microbiology 65: 2378-2394.2015. Doi:10.1099/ijs.0.000270

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfoplanes formicivorans gen. nov., sp. nov., a novel sulfate-reducing bacterium isolated from a brackish meromictic lake, and emended description of the family Desulfomicrobiaceae. International Journal of Systematic and Evolutionary Microbiology 65: 1902-1907.2015.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Sulfuriferula multivorans gen. nov., sp. nov., isolated from a freshwater lake, reclassification of 'Thiobacillus plumbophilus' as Sulfuriferula plumbophilus sp. nov., and description of Sulfuricellaceae fam. nov. and Sulfuricellales ord. nov.　International Journal of Systematic and Evolutionary Microbiology 65: 1504-1508.2015.

*. Yoshinori Takano, Hisaya Kojima, Eriko Takeda, Yusuke Yokoyama and Manabu Fukui. Biogeochemistry and limnology in Antarctic subglacial weathering: molecular evidence of the linkage between subglacial silica input and primary producers in a perennially ice-covered lake. Progress in Earth and Planetary Science 2: 8 (pp15). 2015.

*. Hisaya Kojima, Yoshitoshi Ogura, Nozomi Yamamoto, Tomoaki Togashi, Hiroshi Mori, Tomohiro Watanabe, Fumiko Nemoto, Ken Kurokawa, Tetsuya Hayashi and Manabu Fukui. Ecophysiology of Thioploca ingrica as revealed by the complete genome sequence supplemented with proteomic evidence. The ISME Journal 9: 1166-1176.2015.

【2014年】
*. Hisaya Kojima, Riho Tokizawa and Manabu Fukui. Mizugakiibacter sediminis gen. nov., sp. nov., isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 64: 3983-3987. 2014.

*. Hisaya Kojima, Riho Tokizawa, Kouhei Kogure, Yuki Kobayashi, Masayuki Itoh, Fuh-Kuw Shiah, Noboru Okuda and Manabu Fukui. Community structure of planktonic methane-oxidizing bacteria in a subtropical reservoir characterized by dominance of phylotype closely related to nitrite reducer. Scientific Reports 4: 5728. DOI: 10.1038/srep05728.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Complete genomes of freshwater sulfur oxidizers Sulfuricella denitrificans skB26 and Sulfuritalea hydrogenivorans sk43H: Genetic insights into the sulfur oxidation pathway of betaproteobacteria. Systematic and Applied Microbiology 37: 387-395.2014.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Proposal of Effusibacillus lacus gen. nov., sp. nov. and reclassification of Alicyclobacillus pohliae as Effusibacillus pohliae comb. nov. and Alicyclobacillus consociatus as Effusibacillus consociatus comb. nov.. International Journal of Systematic and Evolutionary Microbiology 64: 2770-2774.2014.

*. Kyoko Kubo, Hisaya Kojima, and Manabu Fukui. Vertical distribution of major sulfate-reducing bacteria in a eutrophic shallow meromictic lake. Systematic and Applied Microbiology 37: 510-519. 2014.

*. Hisaya Kojima, Johanna Moll, Joerg Kahnt, Manabu Fukui and Seigo Shima. A reversed genetic approach reveals the coenzyme specificity and the catalytic properties of three enzymes putatively involved in anaerobic oxidation of methane with sulfate. Environmental Microbiology 16: 3431-3442. 2014.

*. Hisaya Kojima, Tomohiro Watanabe, Tomoya Iwata and Manabu Fukui. Identification of major planktonic sulfur oxidizers in stratified freshwater lake. PLoS ONE : e93877. 2014.

*. Hisaya Kojima and Manabu Fukui. Sulfurisoma sediminicola gen. nov., sp. nov., a novel facultative autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 64: 1587-1592. 2014.

【2013年】

*. Tomohiro Watanabe, Hisaya Kojima, Yoshinori Takano and Manabu Fukui. Diversity of sulfur-cycle prokaryotes in freshwater lake sediments investigated using aprA as functional marker gene. Systematic and Applied Microbiology 36: 436-443.2013.

*. Yoshinori Iizuka, Barbara Delmonte, Ikumi Oyabu, Torbjoern Karlin, Valter Maggi, Amuel Albani, Manabu Fukui, Takeo Hondoh and Margareta Hansson. Sulphate and chloride aerosols during Holocene and last glacial periods preserved in the Talos Dome Ice Core, a peripheral region of Antarctica. Tellus B 65: 20197.2013.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfotomaculum intricatum sp. nov., a sulfate-reducer isolated from freshwater lake sediment. International Journal of Systematic and Evolutionary Microbiology 63: 3574-3578. 2013.

*.Takato Matsui, Hisaya Kojima, and Manabu Fukui. Effects of temperature on successive anaerobic decomposition of high-molecular organic matter under sulfate-reducing conditions. Estuarine, Coastal and Shelf Science 119: 139-144. 2013.

*. Akiko Kamono, Marianne Meyer, Thomas Cavalier-Smith,　Manabu Fukui and Anne Maria Fiore-Donno. Exploring slime mould diversity in high altitude forests and grasslands by environmental RNA analysis. FEMS Microbiology Ecology 84: 98-108. 2013.

*. Yuriko Higashioka, Hisaya Kojima, Miho Watanabe and Manabu Fukui. Desulfatitalea tepidiphila gen. nov., sp. nov., a novel sulfate-reducing bacterium isolated from tidal flat sediment. International Journal of Systematic and Evolutionary Microbiology 63: 761-765. 2013.

【2012年】

*. Yoshinori Takano, Jonathan James Tyler, Hisaya Kojima, Yusuke Yokoyama, Yukiko Tanabe, Takaharu Sato, Nanako O. Ogawa, Naohiko Ohkouchi, and Manabu Fukui. Holocene lake developments and glacial-isostatic uplift at Lake Skallen and Lake Oyako, Luetzow-Holm Bay, east Antarctica: based on biogeochemical facies and molecular signatures. Applied Geochemistry 27: 2546-2559. 2012.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Draft genome sequence of a psychrotolerant sulfur-oxidizing bacterium Sulfuricella denitrificans skB26 and proteomic insights into cold adaptation. Applied and Environmental Microbiology 78: 6545-6549. 2012.

*. Fumiko Nemoto, Hisaya Kojima, Akifumi Ohtaka and Manabu Fukui. Filamentous sulfur-oxidizing bacteria of the genus Thioploca from Lake Tonle Sap in Cambodia. Aquatic Microbial Ecology 66: 295-300. 2012.

*. Anne Maria Fiore-Donno, Akiko Kamono, Marianne Meyer, Martin Schnittler, Manabu Fukui and Thomas Cavalier-Smith. 18S rDNA phylogeny of Lanmproderma and allied genera (Stemonitales, Myxomycetes, Amoebozoa). PLoS ONE 7: e35359. 2012.

*. Hisaya Kojima, Masazumi Tsutsumi, Kanako Ishikawa, Tomoya Iwata, Marc Mussmann and Manabu Fukui. Distribution of putative denitrifying methane oxidizing bacteria of a freshwater lake. Systematic and Applied Microbiology 35: 233-238. 2012.

*. Yuriko Higashioka, Hisaya Kojima, and Manabu Fukui. Isolation and characterization of novel sulfate-reducing bacterium capable anaerobic degradation of p-xylene. Microbes and Environments 27: 273-277. 2012.

*. Masanaori Fujii, Hisaya Kojima, Tomoya Iwata, Jotaro Urabe and Manabu Fukui. Dissolved organic carbon as major environmental factor affecting bacterioplankton communities in mountain lakes of eastern Japan. Microbial Ecology 63: 496-508. 2012.

*. Masazumi Tsutsumi, Hisaya Kojima, and Manabu Fukui. Vertical profiles of abundance and potential activity of methane-oxidizing bacteria in sediment of Lake Biwa, Japan. Microbes and Environments 27: 67-71. 2012.

【2011年】

*. Fumiko Nemoto, Hisaya Kojima, and Manabu Fukui. Diversity of freshwater Thioploca species and their specific association with filamentous bacteria of the phylum Chloroflexi. Microbial Ecology 62：753-764.2011.

*. Hisaya Kojima, and Manabu Fukui. Sulfuritalea hydrogenivorans gen. nov., sp. nov., a novel facultative autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 61: 1651-1655. 2011.

*. Masazumi Tsutsumi, Tomoya Iwata, Hisaya Kojima, and Manabu Fukui. Spatiotemporal variations in an assemblage of closely related planktonic aerobic methanotrophs. Freshwater Biology 56: 342-351. 2011.

*. Yuriko Higashioka, Hisaya Kojima and Manabu Fukui. Temperature-dependent differences in community structure of bacteria involved in degradation of petroleum hydrocarbons under sulfate-reducing conditions. Journal of Applied and Microbiology　110: 314-322. 2011.

*. Kyoko Kubo, Katrin Knittel, Rudolf Amann, Manabu Fukui and Katsumi Matsuura. Sulfur-metabolizing bacteria populations in microbial mats of the Nakabusa hot spring, Japan. Systematic and Applied Microbiology 34: 293-302, 2011.

【2010年】

*. Hisaya Kojima, and Manabu Fukui. Sulfuricella denitrificans gen. nov., sp. nov., a novel sulfur-oxidizing autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 60:2862-2866. 2010.

*. Keiichi Tabuchi, Hisaya Kojima, and Manabu Fukui. Seasonal changes in organic matter mineralization in a sublittoral sediment and temperature-driven decoupling of key processes. Microbial Ecology 60: 551-560. 2010.

*. Masanaori Fujii, Yoshinori Takano, Hisaya Kojima, Tamotsu Hoshino, Ryoichi Tanaka and Manabu Fukui. Microbial community structure, pigment composition, and nitrogen source of red snow in Antarctica. Microbial Ecology 59: 466-4775.2010.

*. Anne Fiore-Donno, Akiko Kamono, Ema Chao, Manabu Fukui and Thomas Cavalier-Smith. Invalidation of hyperamoeba by transferring its species to other genera of Myxogastria. Journal of Eukaryotic Biology 52: 189-196. 2010.

【2009年】

*. Akiko Kamono, Hisaya Kojima, Jun Matsumoto, Kimitaka Kawamura and Manabu Fukui. Airborne Myxomycete spore: Detection using molecular techniques. Naturwissenschaften　96: 147-151.2009.

*. Masazumi Tsutsumi, Hisaya Kojima, Shigeru Uemura, Kiyomi Ono, Akihiro Sumida, Toshihiko Hara and Manabu Fukui. Structure and activity of soil-inhabiting methanotrophic communities in northern forest of Japan. Soil Biology and Biochemistry　 41: 403-408.2009.

*. Yuriko Higashioka, Hisaya Kojima, Tatsunori Nakagawa, Shinya Sato and Manabu Fukui. A novel n-alkane-degrading bacterium as a minor member of p-xylene-degrading sulfate-reducing consortium. Biodegradation　20: 383-390.2009.　

*. Yuriko Higashioka, Hisaya Kojima, Shinya Sato, Manabu Fukui. Microbial community analysis at crude oil-contaminated soils targeting the 16S ribosomal RNA, xylM, C23O, and bcr genes. Journal of Applied Microbiology　107: 126-135. 2009.

*. Hisaya Kojima, Tomoya Iwata, and Manabu Fukui. DNA-based analysis of planktonic methanotrophs in a stratified lake. Freshwater Biology　54: 1501-1509.2009.

*. Akiko Kamono, Jun Matsumoto, Hisaya Kojima, and Manabu Fukui. Characterization of myxomycete communities in soil by reverse transcription polymerase chain reaction (RT-PCR)-based method. Soil Biology and Biochemistry 41: 1324-1330. 2009.

*. Hisaya Kojima, Haruo Fukuhara and Manabu Fukui. Community structure of microorganisms asssociated with reddish-brown iron-rich snow. Systematic and Applied Microbiology 32: 429-437. 2009.

東京湾の青潮

このところ、東京湾で青潮発生。その発生メカニズムは、いささか複雑なのですが、大雑把に言うと下記の通り。

生活排水等が東京湾へ流入（栄養塩等の流入）
↓
春から夏にかけて海水温上昇
↓
海水表層で植物プランクトンの増殖
↓
プランクトンの枯死による海水深層へ沈降
↓
深水層や底泥で有機物の好気的微生物分解
↓
深水層の貧酸素化
↓
底泥や深水層での微生物学硫酸還元による硫化水素発生
↓
強風発生により深水層中の硫化水素が表層水へ巻き上がり
↓
酸素による硫化水素自己酸化で元素状硫黄の生成
（結果として青潮の発生）

上記メカニズムは私たちの研究の範疇なのですが、まだまだ未解明なプロセスが多いと言えます。特に、生成された硫化水素を微生物学的に酸化するプロセスを含めた硫黄循環を再考する必要があります。



ご参考までに、東京湾での研究成果は下記の通りです。

*. Hisaya Kojima and Manabu Fukui. Phylogenetic analysis of Beggiatoa spp. From organic rich sediment of Tokyo Bay, Japan. Water Research 37: 3216-3223. 2003.

*. Keiichi Tabuchi, Hisaya Kojima, and Manabu Fukui. Seasonal changes in organic matter mineralization in a sublittoral sediment and temperature-driven decoupling of key processes. Microbial Ecology 60: 551-560. 2010.

*. Yuriko Higashioka, Hisaya Kojima and Manabu Fukui. Temperature-dependent differences in community structure of bacteria involved in degradation of petroleum hydrocarbons under sulfate-reducing conditions. Journal of Applied and Microbiology　110: 314-322. 2011.

*. Yuriko Higashioka, Hisaya Kojima, Miho Watanabe and Manabu Fukui. Desulfatitalea tepidiphila gen. nov., sp. nov., a novel sulfate-reducing bacterium isolated from tidal flat sediment. International Journal of Systematic and Evolutionary Microbiology 63: 761-765. 2013.

*.Takato Matsui, Hisaya Kojima, and Manabu Fukui. Effects of temperature on successive anaerobic decomposition of high-molecular organic matter under sulfate-reducing conditions. Estuarine, Coastal and Shelf Science 119: 139-144. 2013.

*. Yuriko Higashioka, Hisaya Kojima, Tomohiro Watanabe and Manabu Fukui. Draft genome sequence of Desulfatitalea tepidiphila S28bFT. Genome Announcements 3: e01326-15. 2015.

地下生物圏で活躍する主役たち：SulfuritaleaとSulfuricella

地球上の様々な環境に微生物が生息していて生態系を構築していますが、その微生物を人為的に培養しようとしてもほとんどが困難です。これを「微生物のダークマター」と呼んでいますが、この問題を克服するためのアプローチとしてメタオミクス手法（メタゲノム、メタプロテオーム、メタトランスクリプトームなど）が近年急速に発達しています。

さて、南アフリカのウィットウォーターズランド盆地地帯は世界最大級の金鉱床としても知られています。その地下1.3kmという深い層では、スライム（SLiMEs; subsurface lithoautotrophic microbial ecosystems）と呼ばれる無機独立栄養微生物生態系が形成されていることが知られています。温度38℃、pH8.6、汽水性かつ貧酸素環境です：水素濃度8.9nM、メタン濃度1.3mM、硫酸塩濃度623μM、硫化物濃度14.9μM。

プリンストン大学の研究グループが調べたところ、このスライムは脱窒硫黄酸化によって駆動されており、その主役がSulfuritalea（サルフリタレア）とSulfuricella（サルフリセラ）であることが明らかにされました。これらの菌は、小島久弥さんが山梨県のみずがき湖から単離し、新種として記載したものです。

Lau et al. An oligotrophic deep-subsurface community dependent on syntrophy is dominated by sulfur-driven autotrophic denitrifiers. PNAS 113: E7927-E7936. DOI: 10.1073/pnas.1612244113

こうしたメタオミクスを駆使した研究が進展するほど、生態系を構成している微生物の単離培養の重要性がいっそう増すことが再認識されます。

それにしても、Sulfuritalea（サルフリタレア）とSulfuricella（サルフリセラ）。私たちの予想を超えて、さまざまな生態系での報告が増えて来ています。その下支えになっていることの一つは、両菌の完全長ゲノム解読にも成功していることです。

改めて、小島さんの不断の努力に脱帽です。

*. Hisaya Kojima, and Manabu Fukui. Sulfuricella denitrificans gen. nov., sp. nov., a novel sulfur-oxidizing autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 60:2862-2866. 2010.

*. Hisaya Kojima, and Manabu Fukui. Sulfuritalea hydrogenivorans gen. nov., sp. nov., a novel facultative autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 61: 1651-1655. 2011.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Draft genome sequence of a psychrotolerant sulfur-oxidizing bacterium Sulfuricella denitrificans skB26 and proteomic insights into cold adaptation. Applied and Environmental Microbiology 78: 6545-6549. 2012.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Complete genomes of freshwater sulfur oxidizers Sulfuricella denitrificans skB26 and Sulfuritalea hydrogenivorans sk43H: Genetic insights into the sulfur oxidation pathway of betaproteobacteria. Systematic and Applied Microbiology 37: 387-395.2014.

残雪期の山岳調査

今シーズン最初の山岳調査。天候条件は良いとは言えませんが、総勢４人で現場へ。

残雪期の山岳地帯での調査は危険を伴うので、低温科学研究所技術部の森さんにお願いして、安全第一で調査を行なっています。今回、大学院生のAさんは初めての経験と言うことで、行動開始前に森さんより野外行動技術講習です。



さあ、調査地点へ。





助教の寺島美亜さんは、Aさんに試料採取や現場観測法など丁寧に教えています。Aさんも初めてではありますが、熱心かつ意欲的に取り組んでいます。



無事調査を終え、ほっと一息。記念撮影。





さあ、札幌の研究室に戻り、採取した試料の解析です。

＜注＞本調査地は国立公園内にあるため、環境省及び営林署の許可を得て調査を行なっています。

カフェ エコミクロ

Aさんのご好意で、全自動型カフェマシーンがオフィスに設置されました。オフィスのオシャレ度が格段にアップした感があります。



先週の金曜日と土曜日、それぞれ、寺島さんがイギリス・アバディーンから、私がスイスのバーゼルから帰国。お土産と共に味わい深いカフェを頂く。リッチな気分転換で仕事も捗りそうです。

研究論文update170607

【2017年以降】

*. Hisaya Kojima, Miho Watanabe and Manabu Fukui. Sulfurivermis fontis gen. nov., sp. nov., a novel sulfur-oxidizing autotroph, and proposal of Thioprofundaceae fam. nov. International Journal of Systematic and Evolutionary Microbiology . in press

*. Tomohiro Watanabe, Aya Miura, Tomoya Iwata, Hisaya Kojima and Manabu Fukui. Dominance of Sulfuritalea species in nitrate-depleted water of a stratified freshwater lake and arsenate respiration ability within the genus. Environmental Microbiology Reports : . In press.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of Desulfoplanes formicivorans Pf12BT, a sulfate-reducing bacterium of the family Desulfomicrobiaceae. Standards in Genomic Sciences: in press. DOI:

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfosarcina widdelii sp. nov. and Desulfosarcina alkanivorans sp. nov., hydrocarbon-degrading sulfate-reducing bacteria isolated from marine sediment and emended description of the genus Desulfosarcina. International Journal of Systematic and Evolutionary Microbiology : in press. DOI:

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfocucumis palustris gen. nov., sp. nov., a mesophilic sulfate reducer belonging to the Desulfotomaculum subcluster Ig. International Journal of Systematic and Evolutionary Microbiology : in press. DOI:

*. Hisaya Kojima, Miho Watanabe, and Manabu Fukui. Sulfuritortus calidifontis gen. nov., sp. nov., a novel sulfur oxidizer isolated from a hot spring microbial mat. International Journal of Systematic and Evolutionary Microbiology : in press. DOI: 10.1099/ijsem.0.001813


【2016年】

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui.Identity of major sulfur cycle prokaryotes in freshwater lake ecosystems revealed by a comprenensive phylogenetic study of the dissimilatory adenylylsulfate reductase. Scientific Reports 6: 36262. 2016.

*. Kazuhiro Umezawa, Tomohiro Watanabe, Aya Miura, Hisaya Kojima and Manabu Fukui. The complete genome sequences of sulfur-oxidizing gammaproteobacteria Sulfurifustis variabilis skN76T and Sulfuricaulis limicola HA5T. Standards in Genomic Sciences 11: 71. 2016.

*. Hisaya Kojima, Miho Watanabe, Riho Tokizawa, Arisa Shinohara and Manabu Fukui. Hymenobacter nivis sp. nov., isolated from red snow in Antarctica. International Journal of Systematic and Evolutionary Microbiology 66: 4821-4825. 2016. DOI: 10.1099/ijsem.0.001435

*. Yuki Kobayashi, Hisaya Kojima, Masayuki Itoh, Noboru Okuda, Manabu Fukui and Fuh-Kwo Shiah. Abundance of planktonic methane-oxidizing bacteria in a subtropical reservoir. Plankton and Benthos Research 11: 144-146.2016. DOI: 10.3800/pbr.11.144

*. Hisaya Kojima and Manabu Fukui. Sulfuriflexus mobilis gen. nov., sp. nov., a sulfur-oxidizing bacterium isolated from a brackish lake sediment. International Journal of Systematic and Evolutionary Microbiology 66: 3515-3518.2016. doi: 10.1099/ijsem.0.001227

*. Rachel Rudd, Jonathan Tyler, John Tibby, Yusuke Yokoyama, Ines Tavernier, Elie Verleyen, Manabu Fukui and Yoshinori Takano. A diatom inferred of lake hydrological variability during the last 900 years in Luetzow-Holm Bay, East Antarctica. Journal of Quaternary Science 31: 114-125. 2016. DOI: 10.1002/jqs.2845


*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Sulfuriferula thiophila sp. nov., a chemolithoautotrophic sulfur-oxidizing bacterium, and correction of the name Sulfuriferula plumbophilus Watanabe, Kojima and Fukui 2015 to Sulfuriferula plumbophila corrig.　International Journal of Systematic and Evolutionary Microbiology 66: 2041-2045.2016. Doi: 10.1099/ijsem.0.000988.

*. Masanori Fujii, Toshihide Hirao, Hisaya Kojima and Manabu Fukui. Planktonic bacterial communities in mountain lake ecosystems. In: Structure and Function of Mountain Ecosystems in Japan. 145-169.Springer. 2016.

*. Tomoya Iwata, Naoki Mochizuki, Takao Suzuki, Ayato Kohzu, Hisaya Kojima, Manabu Fukui and Jotaro Urabe. Roles of terrestrial carbon subsidies to aquatic community metabolism in mountain lake ecosystems. In: Structure and Function of Mountain Ecosystems in Japan. 115-144. Springer. 2016.

*. Tomohiro Watanabe, Aya Miura, Arisa Shinohara, Hisaya Kojima and Manabu Fukui. Thermithiobacillus plumbiphilus sp. nov., a sulfur-oxidizing bacterium isolated from lead sulfide.　International Journal of Sysytematic and Evolutionary Microbiology 66: 1986-1989.2016. Doi: 10.1099/ijsem.0.000972.

*. Hisaya Kojima, Kazuhiro Umezawa and Manabu Fukui. Caldimicrobium thiodismutans sp. nov., a sulfur-disproportionating bacterium isolated from a hot spring, and emended description of the genus Caldimicrobium. International Journal of Systematics and Evolutionary Microbiology 66: 1828-1831.2016. Doi: 10.1099/ijsem.0.000947.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Complete genome sequence and cell structure of Limnochorda pilosa, a Gram negative spore former whithin the phylum Firmicutes. International Journal of Systematic and Evolutionary Microbiology 66: 1330-1339. 2016. Doi:10.1099/ijsem.0.000881.

*. Hisaya Kojima, Tomohiro Watanabe and Manabu Fukui. Sulfuricaulis limicola gen. nov., sp. nov., a novel sulfur oxidizer from a lake. International Journal of Systematic and Evolutionary Microbiology 66: 266-270. 2016. Doi: 10.1099/ijsem.0.000709.

*. Tomohiro Watanabe, Hisaya Kojima, Arisa Shinohara and Manabu Fukui. Sulfurirhabdus autotrophica gen. nov., sp. nov., isolated from a freshwater lake.　International Journal of Systematic and Evolutionary Microbiology 66: 113-117.2016. Doi: 10.1099/ijsem.0.000679.


【2015年】

*. Yuriko Higashioka, Hisaya Kojima, Tomohiro Watanabe and Manabu Fukui. Draft genome sequence of Desulfatitalea tepidiphila S28bFT. Genome Announcements 3: e01326-15. 2015.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of Mizugakiibacter sediminis skMP5T. Genome Announcements 3: e01185-15. 2015.

*. Ikumi Oyabu, Yoshinori Iizuka, Hubertus Fischer, Simon Schüpbach, Gideon Gfeller, Anders Svensson, Manabu Fukui, Jørgen Peder Steffensen, and Margareta Hansson. Chemical compositions of solid particles present in the Greenland NEEM ice core over the last 110,000 years. Journal of Geophysical Research-Atmospheres 120: 9789-9813.2015. DOI: 10.1002/2015JD023290

*. Hisaya Kojima, Arisa Shinohara and Manabu Fukui. Sulfurifustis variabilis gen. nov., sp. nov., a novel sulfur oxidizer isolated from a lake, and proposal of Acidiferrobacteraceae fam. nov. and Acidiferrobacterales ord. nov. International Journal of Systematic and Evolutionary Microbiology 65: 3709-3713.2015. Doi:10.1099/ijsem.0.000479

*. Masayuki Itoh, Yuki Kobayashi, Tzong-Yueh Chen, Takeshi Tokida, Manabu Fukui, Hisaya Kojima, Takeshi Miki, Ichiro Tayasu, Fuh-Kwo Shiah and Noboru Okuda. Effect of inter-annual variation in winter vertical mixing on CH4 dynamics in a subtropical reservoir. Journal of Geophysics Research-Biogeoscience 120: 1246-1261. 2015.

*. Masanori Fujii, Toshihide Hirao, Hisaya Kojima and Manabu Fukui. Inter-taxonomic differences in bacterioplankton community assembly in oligotrophic mountain lakes of east Japan. Aquatic Microbial Ecology 75: 251-257. 2015.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of a sulfur-oxidizing autotroph, Sulfuricella sp. strain T08, isolated from a freshwater lake. Genome Announcements 3: e00498-15. 2015.

*. Miho Watanabe, Hisaya Kojima, Manabu Fukui. Limnochorda pilosa gen. nov., sp. nov., a moderately thermophilic, facultative anaerobic pleomorphic bacterium and proposal of Limnochordaceae fam. nov., Limnochordales ord. nov. and Limnochordia classis nov. in the phylum Firmicutes. International Journal of Systematic and Evolutionary Microbiology 65: 2378-2394.2015. Doi:10.1099/ijs.0.000270

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfoplanes formicivorans gen. nov., sp. nov., a novel sulfate-reducing bacterium isolated from a brackish meromictic lake, and emended description of the family Desulfomicrobiaceae. International Journal of Systematic and Evolutionary Microbiology 65: 1902-1907.2015.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Sulfuriferula multivorans gen. nov., sp. nov., isolated from a freshwater lake, reclassification of 'Thiobacillus plumbophilus' as Sulfuriferula plumbophilus sp. nov., and description of Sulfuricellaceae fam. nov. and Sulfuricellales ord. nov.　International Journal of Systematic and Evolutionary Microbiology 65: 1504-1508.2015.

*. Yoshinori Takano, Hisaya Kojima, Eriko Takeda, Yusuke Yokoyama and Manabu Fukui. Biogeochemistry and limnology in Antarctic subglacial weathering: molecular evidence of the linkage between subglacial silica input and primary producers in a perennially ice-covered lake. Progress in Earth and Planetary Science 2: 8 (pp15). 2015.

*. Hisaya Kojima, Yoshitoshi Ogura, Nozomi Yamamoto, Tomoaki Togashi, Hiroshi Mori, Tomohiro Watanabe, Fumiko Nemoto, Ken Kurokawa, Tetsuya Hayashi and Manabu Fukui. Ecophysiology of Thioploca ingrica as revealed by the complete genome sequence supplemented with proteomic evidence. The ISME Journal 9: 1166-1176.2015.

【2014年】
*. Hisaya Kojima, Riho Tokizawa and Manabu Fukui. Mizugakiibacter sediminis gen. nov., sp. nov., isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 64: 3983-3987. 2014.

*. Hisaya Kojima, Riho Tokizawa, Kouhei Kogure, Yuki Kobayashi, Masayuki Itoh, Fuh-Kuw Shiah, Noboru Okuda and Manabu Fukui. Community structure of planktonic methane-oxidizing bacteria in a subtropical reservoir characterized by dominance of phylotype closely related to nitrite reducer. Scientific Reports 4: 5728. DOI: 10.1038/srep05728.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Complete genomes of freshwater sulfur oxidizers Sulfuricella denitrificans skB26 and Sulfuritalea hydrogenivorans sk43H: Genetic insights into the sulfur oxidation pathway of betaproteobacteria. Systematic and Applied Microbiology 37: 387-395.2014.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Proposal of Effusibacillus lacus gen. nov., sp. nov. and reclassification of Alicyclobacillus pohliae as Effusibacillus pohliae comb. nov. and Alicyclobacillus consociatus as Effusibacillus consociatus comb. nov.. International Journal of Systematic and Evolutionary Microbiology 64: 2770-2774.2014.

*. Kyoko Kubo, Hisaya Kojima, and Manabu Fukui. Vertical distribution of major sulfate-reducing bacteria in a eutrophic shallow meromictic lake. Systematic and Applied Microbiology 37: 510-519. 2014.

*. Hisaya Kojima, Johanna Moll, Joerg Kahnt, Manabu Fukui and Seigo Shima. A reversed genetic approach reveals the coenzyme specificity and the catalytic properties of three enzymes putatively involved in anaerobic oxidation of methane with sulfate. Environmental Microbiology 16: 3431-3442. 2014.

*. Hisaya Kojima, Tomohiro Watanabe, Tomoya Iwata and Manabu Fukui. Identification of major planktonic sulfur oxidizers in stratified freshwater lake. PLoS ONE : e93877. 2014.

*. Hisaya Kojima and Manabu Fukui. Sulfurisoma sediminicola gen. nov., sp. nov., a novel facultative autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 64: 1587-1592. 2014.

【2013年】

*. Tomohiro Watanabe, Hisaya Kojima, Yoshinori Takano and Manabu Fukui. Diversity of sulfur-cycle prokaryotes in freshwater lake sediments investigated using aprA as functional marker gene. Systematic and Applied Microbiology 36: 436-443.2013.

*. Yoshinori Iizuka, Barbara Delmonte, Ikumi Oyabu, Torbjoern Karlin, Valter Maggi, Amuel Albani, Manabu Fukui, Takeo Hondoh and Margareta Hansson. Sulphate and chloride aerosols during Holocene and last glacial periods preserved in the Talos Dome Ice Core, a peripheral region of Antarctica. Tellus B 65: 20197.2013.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfotomaculum intricatum sp. nov., a sulfate-reducer isolated from freshwater lake sediment. International Journal of Systematic and Evolutionary Microbiology 63: 3574-3578. 2013.

*.Takato Matsui, Hisaya Kojima, and Manabu Fukui. Effects of temperature on successive anaerobic decomposition of high-molecular organic matter under sulfate-reducing conditions. Estuarine, Coastal and Shelf Science 119: 139-144. 2013.

*. Akiko Kamono, Marianne Meyer, Thomas Cavalier-Smith,　Manabu Fukui and Anne Maria Fiore-Donno. Exploring slime mould diversity in high altitude forests and grasslands by environmental RNA analysis. FEMS Microbiology Ecology 84: 98-108. 2013.

*. Yuriko Higashioka, Hisaya Kojima, Miho Watanabe and Manabu Fukui. Desulfatitalea tepidiphila gen. nov., sp. nov., a novel sulfate-reducing bacterium isolated from tidal flat sediment. International Journal of Systematic and Evolutionary Microbiology 63: 761-765. 2013.

【2012年】

*. Yoshinori Takano, Jonathan James Tyler, Hisaya Kojima, Yusuke Yokoyama, Yukiko Tanabe, Takaharu Sato, Nanako O. Ogawa, Naohiko Ohkouchi, and Manabu Fukui. Holocene lake developments and glacial-isostatic uplift at Lake Skallen and Lake Oyako, Luetzow-Holm Bay, east Antarctica: based on biogeochemical facies and molecular signatures. Applied Geochemistry 27: 2546-2559. 2012.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Draft genome sequence of a psychrotolerant sulfur-oxidizing bacterium Sulfuricella denitrificans skB26 and proteomic insights into cold adaptation. Applied and Environmental Microbiology 78: 6545-6549. 2012.

*. Fumiko Nemoto, Hisaya Kojima, Akifumi Ohtaka and Manabu Fukui. Filamentous sulfur-oxidizing bacteria of the genus Thioploca from Lake Tonle Sap in Cambodia. Aquatic Microbial Ecology 66: 295-300. 2012.

*. Anne Maria Fiore-Donno, Akiko Kamono, Marianne Meyer, Martin Schnittler, Manabu Fukui and Thomas Cavalier-Smith. 18S rDNA phylogeny of Lanmproderma and allied genera (Stemonitales, Myxomycetes, Amoebozoa). PLoS ONE 7: e35359. 2012.

*. Hisaya Kojima, Masazumi Tsutsumi, Kanako Ishikawa, Tomoya Iwata, Marc Mussmann and Manabu Fukui. Distribution of putative denitrifying methane oxidizing bacteria of a freshwater lake. Systematic and Applied Microbiology 35: 233-238. 2012.

*. Yuriko Higashioka, Hisaya Kojima, and Manabu Fukui. Isolation and characterization of novel sulfate-reducing bacterium capable anaerobic degradation of p-xylene. Microbes and Environments 27: 273-277. 2012.

*. Masanaori Fujii, Hisaya Kojima, Tomoya Iwata, Jotaro Urabe and Manabu Fukui. Dissolved organic carbon as major environmental factor affecting bacterioplankton communities in mountain lakes of eastern Japan. Microbial Ecology 63: 496-508. 2012.

*. Masazumi Tsutsumi, Hisaya Kojima, and Manabu Fukui. Vertical profiles of abundance and potential activity of methane-oxidizing bacteria in sediment of Lake Biwa, Japan. Microbes and Environments 27: 67-71. 2012.

【2011年】

*. Fumiko Nemoto, Hisaya Kojima, and Manabu Fukui. Diversity of freshwater Thioploca species and their specific association with filamentous bacteria of the phylum Chloroflexi. Microbial Ecology 62：753-764.2011.

*. Hisaya Kojima, and Manabu Fukui. Sulfuritalea hydrogenivorans gen. nov., sp. nov., a novel facultative autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 61: 1651-1655. 2011.

*. Masazumi Tsutsumi, Tomoya Iwata, Hisaya Kojima, and Manabu Fukui. Spatiotemporal variations in an assemblage of closely related planktonic aerobic methanotrophs. Freshwater Biology 56: 342-351. 2011.

*. Yuriko Higashioka, Hisaya Kojima and Manabu Fukui. Temperature-dependent differences in community structure of bacteria involved in degradation of petroleum hydrocarbons under sulfate-reducing conditions. Journal of Applied and Microbiology　110: 314-322. 2011.

*. Kyoko Kubo, Katrin Knittel, Rudolf Amann, Manabu Fukui and Katsumi Matsuura. Sulfur-metabolizing bacteria populations in microbial mats of the Nakabusa hot spring, Japan. Systematic and Applied Microbiology 34: 293-302, 2011.

【2010年】

*. Hisaya Kojima, and Manabu Fukui. Sulfuricella denitrificans gen. nov., sp. nov., a novel sulfur-oxidizing autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 60:2862-2866. 2010.

*. Keiichi Tabuchi, Hisaya Kojima, and Manabu Fukui. Seasonal changes in organic matter mineralization in a sublittoral sediment and temperature-driven decoupling of key processes. Microbial Ecology 60: 551-560. 2010.

*. Masanaori Fujii, Yoshinori Takano, Hisaya Kojima, Tamotsu Hoshino, Ryoichi Tanaka and Manabu Fukui. Microbial community structure, pigment composition, and nitrogen source of red snow in Antarctica. Microbial Ecology 59: 466-4775.2010.

*. Anne Fiore-Donno, Akiko Kamono, Ema Chao, Manabu Fukui and Thomas Cavalier-Smith. Invalidation of hyperamoeba by transferring its species to other genera of Myxogastria. Journal of Eukaryotic Biology 52: 189-196. 2010.

【2009年】

*. Akiko Kamono, Hisaya Kojima, Jun Matsumoto, Kimitaka Kawamura and Manabu Fukui. Airborne Myxomycete spore: Detection using molecular techniques. Naturwissenschaften　96: 147-151.2009.

*. Masazumi Tsutsumi, Hisaya Kojima, Shigeru Uemura, Kiyomi Ono, Akihiro Sumida, Toshihiko Hara and Manabu Fukui. Structure and activity of soil-inhabiting methanotrophic communities in northern forest of Japan. Soil Biology and Biochemistry　 41: 403-408.2009.

*. Yuriko Higashioka, Hisaya Kojima, Tatsunori Nakagawa, Shinya Sato and Manabu Fukui. A novel n-alkane-degrading bacterium as a minor member of p-xylene-degrading sulfate-reducing consortium. Biodegradation　20: 383-390.2009.　

*. Yuriko Higashioka, Hisaya Kojima, Shinya Sato, Manabu Fukui. Microbial community analysis at crude oil-contaminated soils targeting the 16S ribosomal RNA, xylM, C23O, and bcr genes. Journal of Applied Microbiology　107: 126-135. 2009.

*. Hisaya Kojima, Tomoya Iwata, and Manabu Fukui. DNA-based analysis of planktonic methanotrophs in a stratified lake. Freshwater Biology　54: 1501-1509.2009.

*. Akiko Kamono, Jun Matsumoto, Hisaya Kojima, and Manabu Fukui. Characterization of myxomycete communities in soil by reverse transcription polymerase chain reaction (RT-PCR)-based method. Soil Biology and Biochemistry 41: 1324-1330. 2009.

*. Hisaya Kojima, Haruo Fukuhara and Manabu Fukui. Community structure of microorganisms asssociated with reddish-brown iron-rich snow. Systematic and Applied Microbiology 32: 429-437. 2009.

小宇宙としての湖：淡水の貧酸素•無酸素水塊での微生物たち

2004年８月に低温科学研究所に赴任してから１３年が過ぎようとしています。新天地での研究展開をいかに行うか？　2005年４月に赴任した小島久弥さんと議論し、研究フィールドの一つとして山梨県のダム湖である「みずがき湖」を選びました。

山梨大学の岩田智也先生のご協力のもと、2006年より現場での調査を開始。みずがき湖は、標高800mにあり、最大水深52mで、成層構造が発達します。水深25m以深は、常に低温かつ貧酸素ないし無酸素状態が維持されています。このような環境で物質循環はどのように行われるのか、それを担う微生物の生理生態は？　

幸運にも期待以上の成果が得られ、驚きの連続です！　一連の研究には、小島久弥さんの貢献もさることながら、現在ドイツでアレキサンダーフンボルトフェローとして活躍中の渡邉友浩さんの存在も大きかったと思います。　

今後もワクワクする新発見が続出しそうで、楽しみです。



みずがき湖で調査している小島さんと友浩さん。水深45mから湖水を引き揚げている友浩さんは輝いていますね。

　
【みずがき湖で得られた研究成果】
*. Hisaya Kojima, Tomoya Iwata, and Manabu Fukui. DNA-based analysis of planktonic methanotrophs in a stratified lake. Freshwater Biology　54: 1501-1509.2009.

*. Hisaya Kojima, and Manabu Fukui. Sulfuricella denitrificans gen. nov., sp. nov., a novel sulfur-oxidizing autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 60:2862-2866. 2010.

*. Masazumi Tsutsumi, Tomoya Iwata, Hisaya Kojima, and Manabu Fukui. Spatiotemporal variations in an assemblage of closely related planktonic aerobic methanotrophs. Freshwater Biology 56: 342-351. 2011.

*. Hisaya Kojima, and Manabu Fukui. Sulfuritalea hydrogenivorans gen. nov., sp. nov., a novel facultative autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 61: 1651-1655. 2011.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Draft genome sequence of a psychrotolerant sulfur-oxidizing bacterium Sulfuricella denitrificans skB26 and proteomic insights into cold adaptation. Applied and Environmental Microbiology 78: 6545-6549. 2012.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfotomaculum intricatum sp. nov., a sulfate-reducer isolated from freshwater lake sediment. International Journal of Systematic and Evolutionary Microbiology 63: 3574-3578. 2013.

*. Tomohiro Watanabe, Hisaya Kojima, Yoshinori Takano and Manabu Fukui. Diversity of sulfur-cycle prokaryotes in freshwater lake sediments investigated using aprA as functional marker gene. Systematic and Applied Microbiology 36: 436-443.2013.

*. Hisaya Kojima, Tomohiro Watanabe, Tomoya Iwata and Manabu Fukui. Identification of major planktonic sulfur oxidizers in stratified freshwater lake. PLoS ONE : e93877. 2014.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Proposal of Effusibacillus lacus gen. nov., sp. nov. and reclassification of Alicyclobacillus pohliae as Effusibacillus pohliae comb. nov. and Alicyclobacillus consociatus as Effusibacillus consociatus comb. nov.. International Journal of Systematic and Evolutionary Microbiology 64: 2770-2774.2014.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Complete genomes of freshwater sulfur oxidizers Sulfuricella denitrificans skB26 and Sulfuritalea hydrogenivorans sk43H: Genetic insights into the sulfur oxidation pathway of betaproteobacteria. Systematic and Applied Microbiology 37: 387-395.2014.

*. Hisaya Kojima, Riho Tokizawa and Manabu Fukui. Mizugakiibacter sediminis gen. nov., sp. nov., isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 64: 3983-3987. 2014.

*. Hisaya Kojima, Arisa Shinohara and Manabu Fukui. Sulfurifustis variabilis gen. nov., sp. nov., a novel sulfur oxidizer isolated from a lake, and proposal of Acidiferrobacteraceae fam. nov. and Acidiferrobacterales ord. nov. International Journal of Systematic and Evolutionary Microbiology 65: 3709-3713.2015. Doi:10.1099/ijsem.0.000479

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of Mizugakiibacter sediminis skMP5T. Genome Announcements 3: e01185-15. 2015.

*. Kazuhiro Umezawa, Tomohiro Watanabe, Aya Miura, Hisaya Kojima and Manabu Fukui. The complete genome sequences of sulfur-oxidizing gammaproteobacteria Sulfurifustis variabilis skN76T and Sulfuricaulis limicola HA5T. Standards in Genomic Sciences 11: 71. 2016.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui.Identity of major sulfur cycle prokaryotes in freshwater lake ecosystems revealed by a comprenensive phylogenetic study of the dissimilatory adenylylsulfate reductase. Scientific Reports 6: 36262. 2016.

*. Tomohiro Watanabe, Aya Miura, Tomoya Iwata, Hisaya Kojima and Manabu Fukui. Dominance of Sulfuritalea species in nitrate-depleted water of a stratified freshwater lake and arsenate respiration ability within the genus. Environmental Microbiology Reports : . In press.

研究論文update170604

【2017年以降】

*. Tomohiro Watanabe, Aya Miura, Tomoya Iwata, Hisaya Kojima and Manabu Fukui. Dominance of Sulfuritalea species in nitrate-depleted water of a stratified freshwater lake and arsenate respiration ability within the genus. Environmental Microbiology Reports : . In press.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of Desulfoplanes formicivorans Pf12BT, a sulfate-reducing bacterium of the family Desulfomicrobiaceae. Standards in Genomic Sciences: in press. DOI:

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfosarcina widdelii sp. nov. and Desulfosarcina alkanivorans sp. nov., hydrocarbon-degrading sulfate-reducing bacteria isolated from marine sediment and emended description of the genus Desulfosarcina. International Journal of Systematic and Evolutionary Microbiology : in press. DOI:

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfocucumis palustris gen. nov., sp. nov., a mesophilic sulfate reducer belonging to the Desulfotomaculum subcluster Ig. International Journal of Systematic and Evolutionary Microbiology : in press. DOI:

*. Hisaya Kojima, Miho Watanabe, and Manabu Fukui. Sulfuritortus calidifontis gen. nov., sp. nov., a novel sulfur oxidizer isolated from a hot spring microbial mat. International Journal of Systematic and Evolutionary Microbiology : in press. DOI: 10.1099/ijsem.0.001813


【2016年】

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui.Identity of major sulfur cycle prokaryotes in freshwater lake ecosystems revealed by a comprenensive phylogenetic study of the dissimilatory adenylylsulfate reductase. Scientific Reports 6: 36262. 2016.

*. Kazuhiro Umezawa, Tomohiro Watanabe, Aya Miura, Hisaya Kojima and Manabu Fukui. The complete genome sequences of sulfur-oxidizing gammaproteobacteria Sulfurifustis variabilis skN76T and Sulfuricaulis limicola HA5T. Standards in Genomic Sciences 11: 71. 2016.

*. Hisaya Kojima, Miho Watanabe, Riho Tokizawa, Arisa Shinohara and Manabu Fukui. Hymenobacter nivis sp. nov., isolated from red snow in Antarctica. International Journal of Systematic and Evolutionary Microbiology 66: 4821-4825. 2016. DOI: 10.1099/ijsem.0.001435

*. Yuki Kobayashi, Hisaya Kojima, Masayuki Itoh, Noboru Okuda, Manabu Fukui and Fuh-Kwo Shiah. Abundance of planktonic methane-oxidizing bacteria in a subtropical reservoir. Plankton and Benthos Research 11: 144-146.2016. DOI: 10.3800/pbr.11.144

*. Hisaya Kojima and Manabu Fukui. Sulfuriflexus mobilis gen. nov., sp. nov., a sulfur-oxidizing bacterium isolated from a brackish lake sediment. International Journal of Systematic and Evolutionary Microbiology 66: 3515-3518.2016. doi: 10.1099/ijsem.0.001227

*. Rachel Rudd, Jonathan Tyler, John Tibby, Yusuke Yokoyama, Ines Tavernier, Elie Verleyen, Manabu Fukui and Yoshinori Takano. A diatom inferred of lake hydrological variability during the last 900 years in Luetzow-Holm Bay, East Antarctica. Journal of Quaternary Science 31: 114-125. 2016. DOI: 10.1002/jqs.2845


*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Sulfuriferula thiophila sp. nov., a chemolithoautotrophic sulfur-oxidizing bacterium, and correction of the name Sulfuriferula plumbophilus Watanabe, Kojima and Fukui 2015 to Sulfuriferula plumbophila corrig.　International Journal of Systematic and Evolutionary Microbiology 66: 2041-2045.2016. Doi: 10.1099/ijsem.0.000988.

*. Masanori Fujii, Toshihide Hirao, Hisaya Kojima and Manabu Fukui. Planktonic bacterial communities in mountain lake ecosystems. In: Structure and Function of Mountain Ecosystems in Japan. 145-169.Springer. 2016.

*. Tomoya Iwata, Naoki Mochizuki, Takao Suzuki, Ayato Kohzu, Hisaya Kojima, Manabu Fukui and Jotaro Urabe. Roles of terrestrial carbon subsidies to aquatic community metabolism in mountain lake ecosystems. In: Structure and Function of Mountain Ecosystems in Japan. 115-144. Springer. 2016.

*. Tomohiro Watanabe, Aya Miura, Arisa Shinohara, Hisaya Kojima and Manabu Fukui. Thermithiobacillus plumbiphilus sp. nov., a sulfur-oxidizing bacterium isolated from lead sulfide.　International Journal of Sysytematic and Evolutionary Microbiology 66: 1986-1989.2016. Doi: 10.1099/ijsem.0.000972.

*. Hisaya Kojima, Kazuhiro Umezawa and Manabu Fukui. Caldimicrobium thiodismutans sp. nov., a sulfur-disproportionating bacterium isolated from a hot spring, and emended description of the genus Caldimicrobium. International Journal of Systematics and Evolutionary Microbiology 66: 1828-1831.2016. Doi: 10.1099/ijsem.0.000947.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Complete genome sequence and cell structure of Limnochorda pilosa, a Gram negative spore former whithin the phylum Firmicutes. International Journal of Systematic and Evolutionary Microbiology 66: 1330-1339. 2016. Doi:10.1099/ijsem.0.000881.

*. Hisaya Kojima, Tomohiro Watanabe and Manabu Fukui. Sulfuricaulis limicola gen. nov., sp. nov., a novel sulfur oxidizer from a lake. International Journal of Systematic and Evolutionary Microbiology 66: 266-270. 2016. Doi: 10.1099/ijsem.0.000709.

*. Tomohiro Watanabe, Hisaya Kojima, Arisa Shinohara and Manabu Fukui. Sulfurirhabdus autotrophica gen. nov., sp. nov., isolated from a freshwater lake.　International Journal of Systematic and Evolutionary Microbiology 66: 113-117.2016. Doi: 10.1099/ijsem.0.000679.


【2015年】

*. Yuriko Higashioka, Hisaya Kojima, Tomohiro Watanabe and Manabu Fukui. Draft genome sequence of Desulfatitalea tepidiphila S28bFT. Genome Announcements 3: e01326-15. 2015.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of Mizugakiibacter sediminis skMP5T. Genome Announcements 3: e01185-15. 2015.

*. Ikumi Oyabu, Yoshinori Iizuka, Hubertus Fischer, Simon Schüpbach, Gideon Gfeller, Anders Svensson, Manabu Fukui, Jørgen Peder Steffensen, and Margareta Hansson. Chemical compositions of solid particles present in the Greenland NEEM ice core over the last 110,000 years. Journal of Geophysical Research-Atmospheres 120: 9789-9813.2015. DOI: 10.1002/2015JD023290

*. Hisaya Kojima, Arisa Shinohara and Manabu Fukui. Sulfurifustis variabilis gen. nov., sp. nov., a novel sulfur oxidizer isolated from a lake, and proposal of Acidiferrobacteraceae fam. nov. and Acidiferrobacterales ord. nov. International Journal of Systematic and Evolutionary Microbiology 65: 3709-3713.2015. Doi:10.1099/ijsem.0.000479

*. Masayuki Itoh, Yuki Kobayashi, Tzong-Yueh Chen, Takeshi Tokida, Manabu Fukui, Hisaya Kojima, Takeshi Miki, Ichiro Tayasu, Fuh-Kwo Shiah and Noboru Okuda. Effect of inter-annual variation in winter vertical mixing on CH4 dynamics in a subtropical reservoir. Journal of Geophysics Research-Biogeoscience 120: 1246-1261. 2015.

*. Masanori Fujii, Toshihide Hirao, Hisaya Kojima and Manabu Fukui. Inter-taxonomic differences in bacterioplankton community assembly in oligotrophic mountain lakes of east Japan. Aquatic Microbial Ecology 75: 251-257. 2015.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Draft genome sequence of a sulfur-oxidizing autotroph, Sulfuricella sp. strain T08, isolated from a freshwater lake. Genome Announcements 3: e00498-15. 2015.

*. Miho Watanabe, Hisaya Kojima, Manabu Fukui. Limnochorda pilosa gen. nov., sp. nov., a moderately thermophilic, facultative anaerobic pleomorphic bacterium and proposal of Limnochordaceae fam. nov., Limnochordales ord. nov. and Limnochordia classis nov. in the phylum Firmicutes. International Journal of Systematic and Evolutionary Microbiology 65: 2378-2394.2015. Doi:10.1099/ijs.0.000270

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfoplanes formicivorans gen. nov., sp. nov., a novel sulfate-reducing bacterium isolated from a brackish meromictic lake, and emended description of the family Desulfomicrobiaceae. International Journal of Systematic and Evolutionary Microbiology 65: 1902-1907.2015.

*. Tomohiro Watanabe, Hisaya Kojima and Manabu Fukui. Sulfuriferula multivorans gen. nov., sp. nov., isolated from a freshwater lake, reclassification of 'Thiobacillus plumbophilus' as Sulfuriferula plumbophilus sp. nov., and description of Sulfuricellaceae fam. nov. and Sulfuricellales ord. nov.　International Journal of Systematic and Evolutionary Microbiology 65: 1504-1508.2015.

*. Yoshinori Takano, Hisaya Kojima, Eriko Takeda, Yusuke Yokoyama and Manabu Fukui. Biogeochemistry and limnology in Antarctic subglacial weathering: molecular evidence of the linkage between subglacial silica input and primary producers in a perennially ice-covered lake. Progress in Earth and Planetary Science 2: 8 (pp15). 2015.

*. Hisaya Kojima, Yoshitoshi Ogura, Nozomi Yamamoto, Tomoaki Togashi, Hiroshi Mori, Tomohiro Watanabe, Fumiko Nemoto, Ken Kurokawa, Tetsuya Hayashi and Manabu Fukui. Ecophysiology of Thioploca ingrica as revealed by the complete genome sequence supplemented with proteomic evidence. The ISME Journal 9: 1166-1176.2015.

【2014年】
*. Hisaya Kojima, Riho Tokizawa and Manabu Fukui. Mizugakiibacter sediminis gen. nov., sp. nov., isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 64: 3983-3987. 2014.

*. Hisaya Kojima, Riho Tokizawa, Kouhei Kogure, Yuki Kobayashi, Masayuki Itoh, Fuh-Kuw Shiah, Noboru Okuda and Manabu Fukui. Community structure of planktonic methane-oxidizing bacteria in a subtropical reservoir characterized by dominance of phylotype closely related to nitrite reducer. Scientific Reports 4: 5728. DOI: 10.1038/srep05728.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Complete genomes of freshwater sulfur oxidizers Sulfuricella denitrificans skB26 and Sulfuritalea hydrogenivorans sk43H: Genetic insights into the sulfur oxidation pathway of betaproteobacteria. Systematic and Applied Microbiology 37: 387-395.2014.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Proposal of Effusibacillus lacus gen. nov., sp. nov. and reclassification of Alicyclobacillus pohliae as Effusibacillus pohliae comb. nov. and Alicyclobacillus consociatus as Effusibacillus consociatus comb. nov.. International Journal of Systematic and Evolutionary Microbiology 64: 2770-2774.2014.

*. Kyoko Kubo, Hisaya Kojima, and Manabu Fukui. Vertical distribution of major sulfate-reducing bacteria in a eutrophic shallow meromictic lake. Systematic and Applied Microbiology 37: 510-519. 2014.

*. Hisaya Kojima, Johanna Moll, Joerg Kahnt, Manabu Fukui and Seigo Shima. A reversed genetic approach reveals the coenzyme specificity and the catalytic properties of three enzymes putatively involved in anaerobic oxidation of methane with sulfate. Environmental Microbiology 16: 3431-3442. 2014.

*. Hisaya Kojima, Tomohiro Watanabe, Tomoya Iwata and Manabu Fukui. Identification of major planktonic sulfur oxidizers in stratified freshwater lake. PLoS ONE : e93877. 2014.

*. Hisaya Kojima and Manabu Fukui. Sulfurisoma sediminicola gen. nov., sp. nov., a novel facultative autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 64: 1587-1592. 2014.

【2013年】

*. Tomohiro Watanabe, Hisaya Kojima, Yoshinori Takano and Manabu Fukui. Diversity of sulfur-cycle prokaryotes in freshwater lake sediments investigated using aprA as functional marker gene. Systematic and Applied Microbiology 36: 436-443.2013.

*. Yoshinori Iizuka, Barbara Delmonte, Ikumi Oyabu, Torbjoern Karlin, Valter Maggi, Amuel Albani, Manabu Fukui, Takeo Hondoh and Margareta Hansson. Sulphate and chloride aerosols during Holocene and last glacial periods preserved in the Talos Dome Ice Core, a peripheral region of Antarctica. Tellus B 65: 20197.2013.

*. Miho Watanabe, Hisaya Kojima and Manabu Fukui. Desulfotomaculum intricatum sp. nov., a sulfate-reducer isolated from freshwater lake sediment. International Journal of Systematic and Evolutionary Microbiology 63: 3574-3578. 2013.

*.Takato Matsui, Hisaya Kojima, and Manabu Fukui. Effects of temperature on successive anaerobic decomposition of high-molecular organic matter under sulfate-reducing conditions. Estuarine, Coastal and Shelf Science 119: 139-144. 2013.

*. Akiko Kamono, Marianne Meyer, Thomas Cavalier-Smith,　Manabu Fukui and Anne Maria Fiore-Donno. Exploring slime mould diversity in high altitude forests and grasslands by environmental RNA analysis. FEMS Microbiology Ecology 84: 98-108. 2013.

*. Yuriko Higashioka, Hisaya Kojima, Miho Watanabe and Manabu Fukui. Desulfatitalea tepidiphila gen. nov., sp. nov., a novel sulfate-reducing bacterium isolated from tidal flat sediment. International Journal of Systematic and Evolutionary Microbiology 63: 761-765. 2013.

【2012年】

*. Yoshinori Takano, Jonathan James Tyler, Hisaya Kojima, Yusuke Yokoyama, Yukiko Tanabe, Takaharu Sato, Nanako O. Ogawa, Naohiko Ohkouchi, and Manabu Fukui. Holocene lake developments and glacial-isostatic uplift at Lake Skallen and Lake Oyako, Luetzow-Holm Bay, east Antarctica: based on biogeochemical facies and molecular signatures. Applied Geochemistry 27: 2546-2559. 2012.

*. Tomohiro Watanabe, Hisaya Kojima, and Manabu Fukui. Draft genome sequence of a psychrotolerant sulfur-oxidizing bacterium Sulfuricella denitrificans skB26 and proteomic insights into cold adaptation. Applied and Environmental Microbiology 78: 6545-6549. 2012.

*. Fumiko Nemoto, Hisaya Kojima, Akifumi Ohtaka and Manabu Fukui. Filamentous sulfur-oxidizing bacteria of the genus Thioploca from Lake Tonle Sap in Cambodia. Aquatic Microbial Ecology 66: 295-300. 2012.

*. Anne Maria Fiore-Donno, Akiko Kamono, Marianne Meyer, Martin Schnittler, Manabu Fukui and Thomas Cavalier-Smith. 18S rDNA phylogeny of Lanmproderma and allied genera (Stemonitales, Myxomycetes, Amoebozoa). PLoS ONE 7: e35359. 2012.

*. Hisaya Kojima, Masazumi Tsutsumi, Kanako Ishikawa, Tomoya Iwata, Marc Mussmann and Manabu Fukui. Distribution of putative denitrifying methane oxidizing bacteria of a freshwater lake. Systematic and Applied Microbiology 35: 233-238. 2012.

*. Yuriko Higashioka, Hisaya Kojima, and Manabu Fukui. Isolation and characterization of novel sulfate-reducing bacterium capable anaerobic degradation of p-xylene. Microbes and Environments 27: 273-277. 2012.

*. Masanaori Fujii, Hisaya Kojima, Tomoya Iwata, Jotaro Urabe and Manabu Fukui. Dissolved organic carbon as major environmental factor affecting bacterioplankton communities in mountain lakes of eastern Japan. Microbial Ecology 63: 496-508. 2012.

*. Masazumi Tsutsumi, Hisaya Kojima, and Manabu Fukui. Vertical profiles of abundance and potential activity of methane-oxidizing bacteria in sediment of Lake Biwa, Japan. Microbes and Environments 27: 67-71. 2012.

【2011年】

*. Fumiko Nemoto, Hisaya Kojima, and Manabu Fukui. Diversity of freshwater Thioploca species and their specific association with filamentous bacteria of the phylum Chloroflexi. Microbial Ecology 62：753-764.2011.

*. Hisaya Kojima, and Manabu Fukui. Sulfuritalea hydrogenivorans gen. nov., sp. nov., a novel facultative autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 61: 1651-1655. 2011.

*. Masazumi Tsutsumi, Tomoya Iwata, Hisaya Kojima, and Manabu Fukui. Spatiotemporal variations in an assemblage of closely related planktonic aerobic methanotrophs. Freshwater Biology 56: 342-351. 2011.

*. Yuriko Higashioka, Hisaya Kojima and Manabu Fukui. Temperature-dependent differences in community structure of bacteria involved in degradation of petroleum hydrocarbons under sulfate-reducing conditions. Journal of Applied and Microbiology　110: 314-322. 2011.

*. Kyoko Kubo, Katrin Knittel, Rudolf Amann, Manabu Fukui and Katsumi Matsuura. Sulfur-metabolizing bacteria populations in microbial mats of the Nakabusa hot spring, Japan. Systematic and Applied Microbiology 34: 293-302, 2011.

【2010年】

*. Hisaya Kojima, and Manabu Fukui. Sulfuricella denitrificans gen. nov., sp. nov., a novel sulfur-oxidizing autotroph isolated from a freshwater lake. International Journal of Systematic and Evolutionary Microbiology 60:2862-2866. 2010.

*. Keiichi Tabuchi, Hisaya Kojima, and Manabu Fukui. Seasonal changes in organic matter mineralization in a sublittoral sediment and temperature-driven decoupling of key processes. Microbial Ecology 60: 551-560. 2010.

*. Masanaori Fujii, Yoshinori Takano, Hisaya Kojima, Tamotsu Hoshino, Ryoichi Tanaka and Manabu Fukui. Microbial community structure, pigment composition, and nitrogen source of red snow in Antarctica. Microbial Ecology 59: 466-4775.2010.

*. Anne Fiore-Donno, Akiko Kamono, Ema Chao, Manabu Fukui and Thomas Cavalier-Smith. Invalidation of hyperamoeba by transferring its species to other genera of Myxogastria. Journal of Eukaryotic Biology 52: 189-196. 2010.

【2009年】

*. Akiko Kamono, Hisaya Kojima, Jun Matsumoto, Kimitaka Kawamura and Manabu Fukui. Airborne Myxomycete spore: Detection using molecular techniques. Naturwissenschaften　96: 147-151.2009.

*. Masazumi Tsutsumi, Hisaya Kojima, Shigeru Uemura, Kiyomi Ono, Akihiro Sumida, Toshihiko Hara and Manabu Fukui. Structure and activity of soil-inhabiting methanotrophic communities in northern forest of Japan. Soil Biology and Biochemistry　 41: 403-408.2009.

*. Yuriko Higashioka, Hisaya Kojima, Tatsunori Nakagawa, Shinya Sato and Manabu Fukui. A novel n-alkane-degrading bacterium as a minor member of p-xylene-degrading sulfate-reducing consortium. Biodegradation　20: 383-390.2009.　

*. Yuriko Higashioka, Hisaya Kojima, Shinya Sato, Manabu Fukui. Microbial community analysis at crude oil-contaminated soils targeting the 16S ribosomal RNA, xylM, C23O, and bcr genes. Journal of Applied Microbiology　107: 126-135. 2009.

*. Hisaya Kojima, Tomoya Iwata, and Manabu Fukui. DNA-based analysis of planktonic methanotrophs in a stratified lake. Freshwater Biology　54: 1501-1509.2009.

*. Akiko Kamono, Jun Matsumoto, Hisaya Kojima, and Manabu Fukui. Characterization of myxomycete communities in soil by reverse transcription polymerase chain reaction (RT-PCR)-based method. Soil Biology and Biochemistry 41: 1324-1330. 2009.

*. Hisaya Kojima, Haruo Fukuhara and Manabu Fukui. Community structure of microorganisms asssociated with reddish-brown iron-rich snow. Systematic and Applied Microbiology 32: 429-437. 2009.