GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent. Export

@article{citeulike:4166553, abstract = {Deep-sea hydrothermal vents are one of the most unique and fascinating ecosystems on Earth. Although phylogenetic diversity of vent communities has been extensively examined, their physiological diversity is poorly understood. In this study, a GeoChip-based, high-throughput metagenomics technology revealed dramatic differences in microbial metabolic functions in a newly grown protochimney (inner section, Proto-I; outer section, Proto-O) and the outer section of a mature chimney (4143-1) at the Juan de Fuca Ridge. Very limited numbers of functional genes were detected in Proto-I (113 genes), whereas much higher numbers of genes were detected in Proto-O (504 genes) and 4143-1 (5,414 genes). Microbial functional genes/populations in Proto-O and Proto-I were substantially different (around 1\% common genes), suggesting a rapid change in the microbial community composition during the growth of the chimney. Previously retrieved cbbL and cbbM genes involved in the Calvin Benson Bassham (CBB) cycle from deep-sea hydrothermal vents were predominant in Proto-O and 4143-1, whereas photosynthetic green-like cbbL genes were the major components in Proto-I. In addition, genes involved in methanogenesis, aerobic and anaerobic methane oxidation (e.g., ANME1 and ANME2), nitrification, denitrification, sulfate reduction, degradation of complex carbon substrates, and metal resistance were also detected. Clone libraries supported the GeoChip results but were less effective than the microarray in delineating microbial populations of low biomass. Overall, these results suggest that the hydrothermal microbial communities are metabolically and physiologically highly diverse, and the communities appear to be undergoing rapid dynamic succession and adaptation in response to the steep temperature and chemical gradients across the chimney.}, author = {Wang, Fengping and Zhou, Huaiyang and Meng, Jun and Peng, Xiaotong and Jiang, Lijing and Sun, Ping and Zhang, Chuanlun and Van Nostrand, Joy D D. and Deng, Ye and He, Zhili and Wu, Liyou and Zhou, Jizhong and Xiao, Xiang}, citeulike-article-id = {4166553}, citeulike-linkout-0 = {http://dx.doi.org/10.1073/pnas.0810418106}, citeulike-linkout-1 = {http://view.ncbi.nlm.nih.gov/pubmed/19273854}, citeulike-linkout-2 = {http://www.hubmed.org/display.cgi?uids=19273854}, day = {9}, doi = {10.1073/pnas.0810418106}, issn = {1091-6490}, journal = {Proceedings of the National Academy of Sciences of the United States of America}, keywords = {deep-sea, function, vent}, month = {March}, posted-at = {2009-03-15 06:14:45}, priority = {2}, title = {GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent.}, url = {http://dx.doi.org/10.1073/pnas.0810418106}, year = {2009} }

TY - JOUR ID - citeulike:4166553 L3 - citeulike-article-id:4166553 N2 - Deep-sea hydrothermal vents are one of the most unique and fascinating ecosystems on Earth. Although phylogenetic diversity of vent communities has been extensively examined, their physiological diversity is poorly understood. In this study, a GeoChip-based, high-throughput metagenomics technology revealed dramatic differences in microbial metabolic functions in a newly grown protochimney (inner section, Proto-I; outer section, Proto-O) and the outer section of a mature chimney (4143-1) at the Juan de Fuca Ridge. Very limited numbers of functional genes were detected in Proto-I (113 genes), whereas much higher numbers of genes were detected in Proto-O (504 genes) and 4143-1 (5,414 genes). Microbial functional genes/populations in Proto-O and Proto-I were substantially different (around 1% common genes), suggesting a rapid change in the microbial community composition during the growth of the chimney. Previously retrieved cbbL and cbbM genes involved in the Calvin Benson Bassham (CBB) cycle from deep-sea hydrothermal vents were predominant in Proto-O and 4143-1, whereas photosynthetic green-like cbbL genes were the major components in Proto-I. In addition, genes involved in methanogenesis, aerobic and anaerobic methane oxidation (e.g., ANME1 and ANME2), nitrification, denitrification, sulfate reduction, degradation of complex carbon substrates, and metal resistance were also detected. Clone libraries supported the GeoChip results but were less effective than the microarray in delineating microbial populations of low biomass. Overall, these results suggest that the hydrothermal microbial communities are metabolically and physiologically highly diverse, and the communities appear to be undergoing rapid dynamic succession and adaptation in response to the steep temperature and chemical gradients across the chimney. JF - Proceedings of the National Academy of Sciences of the United States of America SN - 1091-6490 TI - GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent. KW - deep-sea KW - function KW - vent AU - Wang, Fengping AU - Zhou, Huaiyang AU - Meng, Jun AU - Peng, Xiaotong AU - Jiang, Lijing AU - Sun, Ping AU - Zhang, Chuanlun AU - Van Nostrand, Joy D AU - Deng, Ye AU - He, Zhili AU - Wu, Liyou AU - Zhou, Jizhong AU - Xiao, Xiang PY - 2009/03/09/ UR - http://dx.doi.org/10.1073/pnas.0810418106 ER -