ALAIN Karine

Chargée de Recherche de 1ère classe (CNRS)
Microbiologiste


Chercheur
Etablissement : Université Bretagne Occidentale
Affectation de recherche : LM2E (Laboratoire de microbiologie des environnements extrêmes)

Equipe(s) :
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Pour la messagerie : prénom.nom@univ-brest.fr
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PUBLICATIONS DANS DES REVUES DE RANG A A COMITE DE LECTURE

1. Querellou, J., Alain, K., Cambon-Bonavita, M.-A. (2001). Thermophiles from deep-sea hydrothermal vents. Vie Milieu, 51(4): 161-172.

2. Alain, K., Marteinsson, V.T., Miroshnichenko, M., Bonch-Osmolovskaya, E., Prieur, D. & Birrien, J.-L. (2002a). Marinitoga piezophila, sp. nov., a rod-shaped thermo-piezophilic bacterium isolated under high hydrostatic pressure from a deep-sea hydrothermal vent. International Journal of Systematic and Evolutionary Microbiology 52:1331-1339.

3. Alain, K., Querellou, J., Lesongeur, F., Pignet, P., Crassous, P., Raguénès, G., Cueff, V. & Cambon-Bonavita, M.-A. (2002b). Caminibacter hydrogeniphilus, gen. nov., sp. nov., a novel thermophilic hydrogen-oxidising bacterium isolated from an East-Pacific rise hydrothermal vent. International Journal of Systematic and Evolutionary Microbiology 52:1317-1323.

4. Alain, K., Pignet, P., Zbinden, M., Quillévéré, M., Duchiron, F., Donval, J.-P., Lesongeur, F., Raguénès, G., Crassous, P., Querellou, J. & Cambon-Bonavita, M.-A. (2002c). Caminicella sporogenes, gen. nov., sp. nov., a novel thermophilic spore-forming bacterium isolated from an East-Pacific rise hydrothermal vent. International Journal of Systematic and Evolutionary Microbiology 52: 1621-1628.

5. Alain, K., Olagnon, M., Desbruyères, D., Pagé, A., Barbier, G., Juniper, S.K., Querellou, J. & Cambon-Bonavita, M.-A. (2002d). Phylogenetic characterization of the bacterial assemblage associated with mucous secretions of the hydrothermal vent polychaete Paralvinella palmiformis. FEMS Microbiology Ecology, 42: 463-476.

6. Alain, K., Rolland, S., Lesongeur, F., Pignet, P., Le Gall, C., Crassous, P. & Querellou, J. (2003). Desulfurobacterium crinifex sp. nov., a novel thermophilic, pinkish-streamers forming, chemolithoautotrophic bacterium isolated from a Juan de Fuca Ridge hydrothermal vent and amendment of the genus Desulfurobacterium. Extremophiles, 7: 361-370.

7. Alain, K., Zbinden, M., Le Bris, N., Lesongeur, F., Querellou, J., Gaill, F. & Cambon-Bonavita, M.-A. (2004). Early steps in microbial colonisation processes at deep-sea hydrothermal vents. Environmental Microbiology 6: 227-241.

8. Pagé, A., Juniper, S.K.J., Olagnon, M., Alain, K., Desrosiers, G., Querellou, J. & Cambon-Bonavita, M.-A. (2005). Microbial diversity associated with a Paralvinella sulfincola tube and the adjacent substratum on an active deep-sea vent chimney. Geobiology 2: 225-238.

9. Alain, K., Holler, T., Musat, F., Elvert, M., Treude, T. & Krüger, M. (2006). Microbiological investigation of methane- and hydrocarbon-discharging mud volcanoes in the Carpathian Mountains, Romania. Environmental Microbiology 8: 574-590.

10. Simon-Colin, C., Alain, K., Colin, S., Cozien, J., Costa, B., Guézennec, J.G. & Raguénès, G.H. (2008). A novel mcl PHA-producing bacterium, Pseudomonas guezennei sp. nov., isolated from a 'kopara' mat located in Rangiroa, an atoll of French Polynesia. Journal of Applied Microbiology 104: 581-586.

11. Alain, K., Tindall, B.J., Intertaglia, L., Catala, P. & Lebaron, P. (2008a). Hellea balneolensis gen. nov. sp. nov., a novel prosthecate alphaproteobacterium from the Mediterranean Sea. International Journal of Systematic and Evolutionary Microbiology 58: 2511-2519.

12. Alain, K., Intertaglia, L., Catala, P. & Lebaron, P. (2008b). Eudoraea adriatica gen. nov. sp. nov., a novel marine bacterium of the family Flavobacteriaceae. International Journal of Systematic and Evolutionary Microbiology 58: 2275-2281.

13. Alain, K., Callac, N., Guégan, M., Lesongeur, F., Crassous, P., Cambon-Bonavita, M.-A., Querellou, J. & Prieur, D. (2009a). Nautilia abyssi sp. nov., a novel thermophilic, chemolithoautotrophic, sulfur-reducing bacterium isolated from an East Pacific Rise hydrothermal vent. International Journal of Systematic and Evolutionary Microbiology 59: 1310-1315.

14. Alain, K. & Querellou, J. (2009b). Cultivating the uncultured: limits, advances and future challenges. Extremophiles 13: 583-594.

15. Byrne, N., Lesongeur, F., Bienvenu, N., Geslin, C., Alain, K., Prieur, D. & Godfroy, A. (2009). Effect of variation of environmental conditions on the microbial communities of deep-sea vent chimneys, cultured in a bioreactor. Extremophiles 13:595-608.

16. Simon-Colin, C., Alain, K., Raguénès, G., Schmitt, S., Kervarec, N., Gouin, C., Crassous, P., Costa, B. & Guézennec, J.G. (2009). Biosynthesis of medium chain length poly(3-hydroxyalkanoates) (mcl-PHAs) from cosmetic co-products by Pseudomonas raguenesii sp. nov., isolated from Tetiaroa, French Polynesia. Bioresource Technology 100: 6033-6039.

17. Alain, K., Postec, A., Grinsard, E., Lesongeur, F., Prieur, D. & Godfroy, A. (2010a). Thermodesulfatator atlanticus sp. nov., a novel thermophilic chemolithoautotrophic sulfate-reducing bacterium isolated from a Mid-Atlantic Ridge hydrothermal vent. International Journal of Systematic and Evolutionary Microbiology 60: 33-38.

18. Alain, K., Tindall, B.J., Catala, P., Intertaglia, L. & Lebaron, P (2010b). Ekhidna lutea gen. nov., sp. nov., a novel member of the phylum Bacteroidetes isolated from the South East Pacific Ocean. International Journal of Systematic and Evolutionary Microbiology 60: 2972-2978.

19. Sayeh, R., Birrien, J.-L., Alain, K., Barbier, G., Hamdi, M. & Prieur, D (2010). Microbial diversity in Tunisian geothermal springs as detected by molecular and culture-based approaches. Extremophiles 14: 501-514.

20. Alain, K., Callac, N., Ciobanu, M.-C., Reynaud, Y., Duthoit, F. & Jebbar, M (2011). DNA extractions from deep subseafloor sediments: Novel cryogenic-mill-based procedure and comparison to existing protocols. Journal of Microbiological Methods 87: 355-362.

21. Ciobanu, M.-C., Rabineau, M., Droz, L., Révillon, S., Ghiglione, J.-F., Dennielou, B., Jorry, S., Kallmeyer, J., Etoubleau, J., Pignet, P., Crassous, P., Laugier, J., Guégan, M., Godfroy, A. & Alain, K. (2012). Sedimentological imprint on subseafloor bacterial and archaeal communities in Mediterranean Sea Quaternary sediments. Biogeosciences 9: 3491-3512.

22. Alain, K., Harder, J., Widdel, F. & Zengler, K. Anaerobic utilization of toluene by marine Alpha- and Gammaproteobacteria reducing nitrate (2012). Microbiology 158: 2946-2957.

23. Zeng, X., Zhang, X., Jiang, L., Alain, K., Jebbar, M. & Shao, Z. (2013). Paleococcus pacificus sp. nov., a novel archaeon from a deep-sea hydrothermal sediment. International Journal of Systematic and Evolutionary Microbiology 63: 2155-2159.

24. Gorlas, A., Bienvenu, N., Alain, K. & Geslin, C. (2013). Thermococcus prieurii sp. nov., a novel hyperthermophilic archaeon isolated from a deep-sea hydrothermal vent at the East Pacific Rise. International Journal of Systematic and Evolutionary Microbiology 63:2920-2926.

 25. Theodorakopoulos, N., Bachar, D., Christen, R., Alain, K. & Chapon, V. (2013). Exploration of Deinococcus-Thermus molecular diversity by novel group-specific PCR primers. Microbiology Open doi: 10.1002/mbo3.119.

26. Gaboyer, F., Tindall, B.J., Ciobanu, M.C., Duthoit, F. & Alain, K. (2013). Phaeobacter leonis sp. nov., a novel alphaproteobacterium from Mediterranean Sea sediments. International Journal of Systematic and Evolutionary Microbiology 63: 3301-3306.

27. L’Haridon, S., Jiang, L., Alain, K., Chalopin, M., Rouxel, O., Beauverger, M., Xu, H., Shao, Z. & Jebbar, M. (2014). Kosmotoga pacifica sp. nov., a thermophilic chemoorganoheterotrophic bacterium isolated from an East Pacific hydrothermal sediment. Extremophiles 18: 81-88.

28. Ciobanu, M.-C., Burgaud, G., Dufresne, A., Breuker, A., Redou, V., Ben Maamar, S., Gaboyer, F., Vandenabeele-Trambouze, O., Lipp, J.S., Schippers, A., Vandenkoornhuyse, P., Barbier, G., Jebbar, M., Godfroy, A. & Alain, K. (2014). Microorganisms persist at record depths in the subseafloor of the Canterbury Basin. The ISME Journal 8: 1370-1380.

29. Gaboyer, F., Vandenabeele-Trambouze, O., Cao, J., Ciobanu, M.-C., Jebbar, M., Le Romancer, M. & Alain, K. (2014). Physiological features of Halomonas lionensis sp. nov., a novel bacterium isolated from a Mediterranean Sea sediment. Research in Microbiology 165: 490-500.

30. Rédou, V., Ciobanu, M.-C., Pachiadaki, M.G., Edgcomb, V., Alain, K., Barbier, G., Burgaud, G. (2014). In-depth analyses of subsurface sediments using 454-pyrosequencing reveals a reservoir of buried fungal communities at record-breaking depths. FEMS Microbiology Ecology 90: 908-921.

31. Zeng, X., Zhang, Z., Li, X., Zhang, X., Cao, J., Jebbar, M., Alain, K. & Shao, Z. (2015). Anoxybacter fermentans gen. nov., a piezophilic, thermophilic, anaerobic, fermentative bacterium isolated from a deep-sea hydrothermal vent. International Journal of Systematic and Evolutionary Microbiology 65:710-715. 

32. Zeng, X., Zhang, Z., Li, X., Jebbar, M., Alain, K. & Shao, Z. (2015). Caloranaerobacter ferrireducens sp. nov., an anaerobic thermophilic iron(Ⅲ)-reducing bacterium isolated from deep-sea hydrothermal sulfide deposits. International Journal of Systematic and Evolutionary Microbiology 65: 1714-1718.

33. Gaboyer, F., Burgaud, G. & Alain, K. (2015). Physiological and evolutionary potential of microorganisms from the Canterbury Basin subseafloor, a metagenomic approach. FEMS Microbiology and Ecology. 91(5): 1-13.

34. Cao, J., Maignien, L., Shao, Z., Alain, K. & Jebbar, M. (2016). Genome sequence of the piezophilic, mesophilic sulfate-reducing bacterium, Desulfovibrio indicus J2T. Genome Announcements. 4(2): e00214-16.

35. Dalmasso, C., Oger, P., Courtine, D., Georges, M., Takai, K., Maignien, L. & Alain, K. (2016). Complete Genome Sequence of the Hyperthermophilic and Piezophilic Archaeon Thermococcus piezophilus CDGST, able to grow under Extreme Hydrostatic Pressures. Genome Announcements. 4(4): e00610-16. doi: 10.1128/genomeA.00610-16.

36. Cao, J., Jebbar, M., Gayet, N., Zeng, X., Shao, Z. & Alain, K. (2016). Pseudodesulfovibrio indicus gen. nov., sp. nov., a piezophilic sulfate-reducing bacterium from the Indian Ocean and reclassification of five Desulfovibrio spp. International Journal of Systematic and Evolutionary Microbiology. 66:3904-3911.

37. Lai, Q., Cao, J., Dupont, S., Shao, Z., Jebbar, M. & Alain, K. (2016). Thermodesulfatator autotrophicus sp. nov., a thermophilic sulfate-reducing bacterium from the Indian Ocean. International Journal of Systematic and Evolutionary Microbiology 66: 3985–3989.

38. Dalmasso, C., Oger, P., Selva, G., Courtine, D., L’Haridon, S., Garlaschelli, A., Roussel, E., Miyazaki, J., Reveillaud, J., Jebbar, M., Takai, K., Maignien, L. & Alain, K. (2016). Thermococcus piezophilus sp. nov., a novel hyperthermophilic and piezophilic archaeon with a broad pressure range for growth, isolated from a deepest hydrothermal vent at the Mid-Cayman Rise. Systematic and Applied Microbiology. 39:440-444.

39. Jiang, L., L’Haridon, S., Jebbar, M., Xu, H., Alain, K. & Shao, Z. (2017). Complete genome sequence and whole-genome phylogeny of Kosmotoga pacifica type strain SLHLJ1T from an East Pacific hydrothermal sediment. Standards in Genomic Sciences. 12:3.

 40. Zhang, X., Zeng, X., Alain, K., Jebbar, M. & Shao, Z. (2017). Anaeromicrobium sediminis gen. nov., sp. nov., a fermentative bacterium isolated from deep-sea sediment from the West Pacific. International Journal of Systematic and Evolutionary Microbiology. 67:1462–1467.

 41. Cao, J., Birien, T., Gayet, N., Huang, Z., Shao, Z., Jebbar, M. & Alain, K. (2017). Desulfurobacterium indicum sp. nov., a thermophilic sulfur-reducing bacterium from the Indian Ocean. International Journal of Systematic and Evolutionary Microbiology. 67:1665–1668.

42. Gaboyer, F., Maignien, L., Jebbar, M. & Alain, K. (2017). Draft genome of Halomonas lionensis, a stress-tolerant gammaproteobacterium isolated from Mediterranean Sea sediments. Genome Announcements. 5(23) e00311-17.

43. Gaboyer, F., Maignien, L., Jebbar, M. & Alain, K. (2017). Draft genome of Phaeobacter leonis type strain 306T, an alphaproteobacterium isolated from Mediterranean Sea sediments. Genome Announcements. 5(26) : e00312-17.

  

PUBLICATIONS DANS DES REVUES SANS COMITE DE LECTURE


1. Le Bris, N., Gaill, F., Alain, K., Cambon, M.-A., Desbruyères, D., Fabri, M.-C., Jeanthon, C., Jollivet, D., Lallier, F., Lopez-Garcia, P., Mével, C., Phillipot, P., Piccino, P., Pradillon, F., Prieur, D., Ravaux, J., Rees, J.-F., Sarradin, P.-M., Shillito, B., Thiebault, E., Zal, F., Zbinden, M. (2002). Biogeochemical interactions in extreme environment conditions: an integrated study (PHARE 2002/ EPR 13°N). InterRidge news 11: 20-23.

2. Rabineau, M., Aslanian, D., Alain, K., Gorini, C. (2011). The GOLD project – Drilling in the Western Mediterranean Sea. ECORD Newsletter 16.

3. Aslanian, D., Rabineau, M., Klingelhoefer, F., Moulin, M., Schnurle, P., Gailler, A., Bache, F., Leroux, E., Gorini, C., Droxler, A., Eguchi, N., Kuroda, J., Alain, K., Roure, F., Haq, B. (2012). Structure and evolution of the Gulf of Lions: the Sardinia seismic experiment and the GOLD (Gulf of Lions Drilling) project. The Leading Edge 31:936-941.

4 Rabineau, M., Aslanian, D., Kuroda, J., McGenity, T., Droxler, A., Sierro, F., Inagaki, F., Hinrichs, K.H., Alain, K., Gorini, C., Haq, B., Eguchi, N., Lofi, J., Lirer, F., Jimenez-Espejo, F., Roure, F., Pezard, P., and the GOLD Working Group (Dos Reis, T., Constantin, M., Burov, E., Dennielou, B., Gardien, V., Jolivet, L., Klingelhoeffer, F., Lucazeau, F., Popescu, S., Bassetti, M-A., Rouxel, O., Schnürle, P., Suc, J.-P.., Thouveny, N., Praeg, D., Sprovieri, M., Ohkouchi, N., Takai, K., Tatsuhiko, H., Cloetingh, S., Bache, F., Huismans, R., Afilhado, A., Moulin, M., Ercilla, G., Hernandez-Molina, J., Mc Kenzie, J., Flecker R., Perez-Gussinye, M., Amend, J., Deino, A., Giosan, L., Scott, G., Waldmann, N.) (2013). The deep sedimentary Western Mediterranean basin (geodynamic, environmental and deep biosphere archives): proposal for a drilling in the Gulf of Lions (GOLD). White paper, Chikyu+10 meeting, Tokyo, Japan.


OUVRAGES


1. Prévot-Julliard, A.-C., Maris, V., Alain, K., Aumeeruddy-Thomas, Y., Devictor, V., Langlais, A., Not F., Puijalon, S., Pujol, B. (Ed.). BiodiversitéS : Nouveaux regards sur le vivant. Editions Le Cherche-Midi, coll. Beau livre, Paris, 2010. ISBN 978-2-7491-1862-8. 176 pages.

2. Alain, K. Les communautés microbiennes des sources hydrothermales du Pacifique : Approches culturales et moléculaires des assemblages microbiens associés aux polychètes hydrothermaux de la famille Alvinellidae. Éditions universitaires européennes, VDM Verlagsservicegesellschaft mbH, Saarbrücken, 2010. ISBN 978-613-1-55077-5. 197 pages.

 

CHAPITRES D'OUVRAGES

1. Toffin, T. & Alain, K. (2014).Cultivation of marine sub-seafloor microorganisms: state-of-the-art solutions and major issues. In Kallmeyer, J., Wagner, D. (Ed.), Microbial Life of the deep biosphere. Editions De Gruyter, Berlin/Boston. pp. 83-99.