Zobrazeno 1 - 10
of 15
pro vyhledávání: '"Jordan A Fish"'
Autor:
Benli Chai, Tamara V Tsoi, Shoko Iwai, Cun Liu, Jordan A Fish, Cheng Gu, Timothy A Johnson, Gerben Zylstra, Brian J Teppen, Hui Li, Syed A Hashsham, Stephen A Boyd, James R Cole, James M Tiedje
Publikováno v:
PLoS ONE, Vol 11, Iss 6, p e0157008 (2016)
Sphingomonas wittichii strain RW1 (RW1) is one of the few strains that can grow on dibenzo-p-dioxin (DD). We conducted a transcriptomic study of RW1 using RNA-Seq to outline transcriptional responses to DD, dibenzofuran (DF), and the smectite clay mi
Externí odkaz:
https://doaj.org/article/1d1a69e482404efda35b07a4f2486174
Publikováno v:
PLoS ONE, Vol 9, Iss 6, p e100163 (2014)
Standing genetic variation and the historical environment in which that variation arises (evolutionary history) are both potentially significant determinants of a population's capacity for evolutionary response to a changing environment. Using the op
Externí odkaz:
https://doaj.org/article/1620d296a4c14bef9459ea59b4e6b3b6
Autor:
Qiong Wang, John F. Quensen, Jordan A. Fish, Tae Kwon Lee, Yanni Sun, James M. Tiedje, James R. Cole
Publikováno v:
mBio, Vol 4, Iss 5 (2013)
ABSTRACT Biological nitrogen fixation is an important component of sustainable soil fertility and a key component of the nitrogen cycle. We used targeted metagenomics to study the nitrogen fixation-capable terrestrial bacterial community by targeting
Externí odkaz:
https://doaj.org/article/6eb8ef141cfc40b3a4e8da84ddd638b1
Sphingomonas wittichii Strain RW1 Genome-Wide Gene Expression Shifts in Response to Dioxins and Clay
Autor:
Stephen Boyd, Tamara V. Tsoi, James R. Cole, Syed A. Hashsham, Shoko Iwai, Timothy A. Johnson, Cun Liu, Brian J. Teppen, Cheng Gu, Jordan A. Fish, Gerben J. Zylstra, Benli Chai, James M. Tiedje, Hui Li
Publikováno v:
PLoS ONE, Vol 11, Iss 6, p e0157008 (2016)
PLoS ONE
PLoS ONE
Sphingomonas wittichii strain RW1 (RW1) is one of the few strains that can grow on dibenzo-p-dioxin (DD). We conducted a transcriptomic study of RW1 using RNA-Seq to outline transcriptional responses to DD, dibenzofuran (DF), and the smectite clay mi
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::54fcbda9e18a60b1d7d87c1752857aec
http://europepmc.org/articles/PMC4911050?pdf=render
http://europepmc.org/articles/PMC4911050?pdf=render
Autor:
James R. Cole, Ederson da Conceição Jesus, James M. Tiedje, Jordan A. Fish, Woo Jun Sul, Ryan J. Farris, Qiong Wang
Publikováno v:
Proceedings of the National Academy of Sciences. 108:14637-14642
High-throughput sequencing of 16S rRNA genes has increased our understanding of microbial community structure, but now even higher-throughput methods to the Illumina scale allow the creation of much larger datasets with more samples and orders-of-mag
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::43b93e79bda51d09f50a88d3e5ffd44e
https://doi.org/10.1073/pnas.1111435108
https://doi.org/10.1073/pnas.1111435108
Autor:
George M. Garrity, Qiong Wang, James R. Cole, Donna M. McGarrell, A. S. Kulam-Syed-Mohideen, Benli Chai, James M. Tiedje, Jordan A. Fish, Ryan J. Farris, Erick Cardenas, Terry L. Marsh
Publikováno v:
Nucleic Acids Research
The Ribosomal Database Project (RDP) provides researchers with quality-controlled bacterial and archaeal small subunit rRNA alignments and analysis tools. An improved alignment strategy uses the Infernal secondary structure aware aligner to provide a
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ad26fe5e33ee2c78e409190f3b131441
https://doi.org/10.1093/nar/gkn879
https://doi.org/10.1093/nar/gkn879
Autor:
James R. Cole, James M. Tiedje, Qiong Wang, C. Titus Brown, Yanni Sun, Jordan A. Fish, Mariah Gilman
Publikováno v:
Microbiome
Microbiome, vol 3, iss 1
Microbiome, vol 3, iss 1
Background Metagenomics can provide important insight into microbial communities. However, assembling metagenomic datasets has proven to be computationally challenging. Current methods often assemble only fragmented partial genes. Results We present
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::0df387c02dd0f80413895acaa43177f8
https://doi.org/10.1186/s40168-015-0093-6
https://doi.org/10.1186/s40168-015-0093-6
Publikováno v:
PLoS ONE, Vol 9, Iss 6, p e100163 (2014)
PLoS ONE
PLoS ONE
Standing genetic variation and the historical environment in which that variation arises (evolutionary history) are both potentially significant determinants of a population's capacity for evolutionary response to a changing environment. Using the op
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6b0041068f793b3b16815eb05e66fc15
Autor:
Jordan A. Fish, Qiong Wang, Tae Kwon Lee, James R. Cole, Yanni Sun, John F. Quensen, James M. Tiedje
Publikováno v:
mBio, Vol 4, Iss 5 (2013)
mBio
mBio
Biological nitrogen fixation is an important component of sustainable soil fertility and a key component of the nitrogen cycle. We used targeted metagenomics to study the nitrogen fixation-capable terrestrial bacterial community by targeting the gene
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6eecaaf5e4d8daeb2199d45f805165b2
https://journals.asm.org/doi/10.1128/mBio.00592-13
https://journals.asm.org/doi/10.1128/mBio.00592-13
Autor:
Jordan A. Fish, Benli eChai, Qiong eWang, Yanni eSun, C. Titus eBrown, James M. Tiedje, James R. Cole
Publikováno v:
Frontiers in Microbiology, Vol 4 (2013)
Frontiers in Microbiology
Frontiers in Microbiology
Ribosomal RNA genes have become the standard molecular markers for microbial community analysis for good reasons, including universal occurrence in cellular organisms, availability of large databases, and ease of rRNA gene region amplification and an
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::653b095c06f187d134a444476c50ee24