High-quality draft genome sequence of Flavobacterium suncheonense GH29-5T (DSM 17707T) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5T
Flavobacterium suncheonense is a member of the family Flavobacteriaceae in the phylum Bacteroidetes . Strain GH29-5 T (DSM 17707 T ) was isolated from greenhouse soil in Suncheon, South Korea. F. suncheonense GH29-5 T is part of the G enomic E ncyclopedia of B acteria and A rchaea project. The 2,880...
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Veröffentlicht in: | Environmental microbiome 2016-06, Vol.11 (1), Article 42 |
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creator | Tashkandy, Nisreen Sabban, Sari Fakieh, Mohammad Meier-Kolthoff, Jan P. Huang, Sixing Tindall, Brian J. Rohde, Manfred Baeshen, Mohammed N. Baeshen, Nabih A. Lapidus, Alla Copeland, Alex Pillay, Manoj Reddy, T. B. K. Huntemann, Marcel Pati, Amrita Ivanova, Natalia Markowitz, Victor Woyke, Tanja Göker, Markus Klenk, Hans-Peter Kyrpides, Nikos C. Hahnke, Richard L. |
description | Flavobacterium suncheonense
is a member of the family
Flavobacteriaceae
in the phylum
Bacteroidetes
. Strain GH29-5
T
(DSM 17707
T
) was isolated from greenhouse soil in Suncheon, South Korea.
F. suncheonense
GH29-5
T
is part of the
G
enomic
E
ncyclopedia of
B
acteria and
A
rchaea
project. The 2,880,663 bp long draft genome consists of 54 scaffolds with 2739 protein-coding genes and 82 RNA genes. The genome of strain GH29-5
T
has 117 genes encoding peptidases but a small number of genes encoding carbohydrate active enzymes (51 CAZymes). Metallo and serine peptidases were found most frequently. Among CAZymes, eight glycoside hydrolase families, nine glycosyl transferase families, two carbohydrate binding module families and four carbohydrate esterase families were identified. Suprisingly, polysaccharides utilization loci (PULs) were not found in strain GH29-5
T
. Based on the coherent physiological and genomic characteristics we suggest that
F. suncheonense
GH29-5
T
feeds rather on proteins than saccharides and lipids. |
doi_str_mv | 10.1186/s40793-016-0159-5 |
format | Article |
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is a member of the family
Flavobacteriaceae
in the phylum
Bacteroidetes
. Strain GH29-5
T
(DSM 17707
T
) was isolated from greenhouse soil in Suncheon, South Korea.
F. suncheonense
GH29-5
T
is part of the
G
enomic
E
ncyclopedia of
B
acteria and
A
rchaea
project. The 2,880,663 bp long draft genome consists of 54 scaffolds with 2739 protein-coding genes and 82 RNA genes. The genome of strain GH29-5
T
has 117 genes encoding peptidases but a small number of genes encoding carbohydrate active enzymes (51 CAZymes). Metallo and serine peptidases were found most frequently. Among CAZymes, eight glycoside hydrolase families, nine glycosyl transferase families, two carbohydrate binding module families and four carbohydrate esterase families were identified. Suprisingly, polysaccharides utilization loci (PULs) were not found in strain GH29-5
T
. Based on the coherent physiological and genomic characteristics we suggest that
F. suncheonense
GH29-5
T
feeds rather on proteins than saccharides and lipids.</description><identifier>ISSN: 1944-3277</identifier><identifier>EISSN: 1944-3277</identifier><identifier>EISSN: 2524-6372</identifier><identifier>DOI: 10.1186/s40793-016-0159-5</identifier><identifier>PMID: 27313837</identifier><language>eng</language><publisher>London: BioMed Central</publisher><subject>Aerobic ; Bacteroidetes ; BASIC BIOLOGICAL SCIENCES ; Carbohydrate active enzyme ; Extended Genome Report ; Flavobacteriaceae ; GEBA ; GGDC ; Gliding motility ; Greenhouse soil ; KMG-1 ; Polysaccharide utilization loci ; Tree of Life</subject><ispartof>Environmental microbiome, 2016-06, Vol.11 (1), Article 42</ispartof><rights>Copyright BioMed Central 2016</rights><rights>The Author(s). 2016</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c2435-71b98e3f04c613f6e897103ac066c9642f2cd2c9e4342f7cf77c6cd9f19578f23</citedby><cites>FETCH-LOGICAL-c2435-71b98e3f04c613f6e897103ac066c9642f2cd2c9e4342f7cf77c6cd9f19578f23</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4910214/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4910214/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,315,728,781,785,865,886,27926,27927,53793,53795</link.rule.ids><backlink>$$Uhttps://www.osti.gov/servlets/purl/1379401$$D View this record in Osti.gov$$Hfree_for_read</backlink></links><search><creatorcontrib>Tashkandy, Nisreen</creatorcontrib><creatorcontrib>Sabban, Sari</creatorcontrib><creatorcontrib>Fakieh, Mohammad</creatorcontrib><creatorcontrib>Meier-Kolthoff, Jan P.</creatorcontrib><creatorcontrib>Huang, Sixing</creatorcontrib><creatorcontrib>Tindall, Brian J.</creatorcontrib><creatorcontrib>Rohde, Manfred</creatorcontrib><creatorcontrib>Baeshen, Mohammed N.</creatorcontrib><creatorcontrib>Baeshen, Nabih A.</creatorcontrib><creatorcontrib>Lapidus, Alla</creatorcontrib><creatorcontrib>Copeland, Alex</creatorcontrib><creatorcontrib>Pillay, Manoj</creatorcontrib><creatorcontrib>Reddy, T. B. K.</creatorcontrib><creatorcontrib>Huntemann, Marcel</creatorcontrib><creatorcontrib>Pati, Amrita</creatorcontrib><creatorcontrib>Ivanova, Natalia</creatorcontrib><creatorcontrib>Markowitz, Victor</creatorcontrib><creatorcontrib>Woyke, Tanja</creatorcontrib><creatorcontrib>Göker, Markus</creatorcontrib><creatorcontrib>Klenk, Hans-Peter</creatorcontrib><creatorcontrib>Kyrpides, Nikos C.</creatorcontrib><creatorcontrib>Hahnke, Richard L.</creatorcontrib><creatorcontrib>Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)</creatorcontrib><title>High-quality draft genome sequence of Flavobacterium suncheonense GH29-5T (DSM 17707T) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5T</title><title>Environmental microbiome</title><description>Flavobacterium suncheonense
is a member of the family
Flavobacteriaceae
in the phylum
Bacteroidetes
. Strain GH29-5
T
(DSM 17707
T
) was isolated from greenhouse soil in Suncheon, South Korea.
F. suncheonense
GH29-5
T
is part of the
G
enomic
E
ncyclopedia of
B
acteria and
A
rchaea
project. The 2,880,663 bp long draft genome consists of 54 scaffolds with 2739 protein-coding genes and 82 RNA genes. The genome of strain GH29-5
T
has 117 genes encoding peptidases but a small number of genes encoding carbohydrate active enzymes (51 CAZymes). Metallo and serine peptidases were found most frequently. Among CAZymes, eight glycoside hydrolase families, nine glycosyl transferase families, two carbohydrate binding module families and four carbohydrate esterase families were identified. Suprisingly, polysaccharides utilization loci (PULs) were not found in strain GH29-5
T
. Based on the coherent physiological and genomic characteristics we suggest that
F. suncheonense
GH29-5
T
feeds rather on proteins than saccharides and lipids.</description><subject>Aerobic</subject><subject>Bacteroidetes</subject><subject>BASIC BIOLOGICAL SCIENCES</subject><subject>Carbohydrate active enzyme</subject><subject>Extended Genome Report</subject><subject>Flavobacteriaceae</subject><subject>GEBA</subject><subject>GGDC</subject><subject>Gliding motility</subject><subject>Greenhouse soil</subject><subject>KMG-1</subject><subject>Polysaccharide utilization loci</subject><subject>Tree of Life</subject><issn>1944-3277</issn><issn>1944-3277</issn><issn>2524-6372</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2016</creationdate><recordtype>article</recordtype><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNqNUsFq3DAQNaWhCUk-IDfRXlqoW8mSLetSKGmTDU3pIZuz0I5HawVb2khyIN_XH6vChpLeOiDmgZ7eGzGvqs4Y_cRY331OgkrFa8q6clpVt6-qI6aEqHkj5esX-LA6TemOluJKKqHeVIeN5Iz3XB5Vv1duO9b3i5lcfiRDNDaTLfowI0l4v6AHJMGSi8k8hI2BjNEtM0mLhxGDR5-QXK6a4r4m77_d_CRMSirXH4hLYTIZB2JjmMk2IvoxLIWdgpuI8-QmLHkkP0JE85EYPxCc0Q_lwYAJottlF_x_Op9UB9ZMCU-f-3F1e_F9fb6qr39dXp1_va6hEbytJduoHrmlAjrGbYe9koxyA7TrQHWisQ0MDSgUvGAJVkroYFCWqVb2tuHH1Ze97m7ZzDgA-hzNpHfRzSY-6mCc_vfGu1Fvw4MWitGGiSLwdi8QUnY6gcsIIwTvEbJmvCyHskJ69-wSQ1lAyvouLNGXj2nWU6qoYJwWFtuzIIaUItq_YzCqn_Kh9_nQJR_6KR-65X8A6MGtOg</recordid><startdate>20160616</startdate><enddate>20160616</enddate><creator>Tashkandy, Nisreen</creator><creator>Sabban, Sari</creator><creator>Fakieh, Mohammad</creator><creator>Meier-Kolthoff, Jan P.</creator><creator>Huang, Sixing</creator><creator>Tindall, Brian J.</creator><creator>Rohde, Manfred</creator><creator>Baeshen, Mohammed N.</creator><creator>Baeshen, Nabih A.</creator><creator>Lapidus, Alla</creator><creator>Copeland, Alex</creator><creator>Pillay, Manoj</creator><creator>Reddy, T. B. K.</creator><creator>Huntemann, Marcel</creator><creator>Pati, Amrita</creator><creator>Ivanova, Natalia</creator><creator>Markowitz, Victor</creator><creator>Woyke, Tanja</creator><creator>Göker, Markus</creator><creator>Klenk, Hans-Peter</creator><creator>Kyrpides, Nikos C.</creator><creator>Hahnke, Richard L.</creator><general>BioMed Central</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X7</scope><scope>7XB</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M7P</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>OIOZB</scope><scope>OTOTI</scope><scope>5PM</scope></search><sort><creationdate>20160616</creationdate><title>High-quality draft genome sequence of Flavobacterium suncheonense GH29-5T (DSM 17707T) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5T</title><author>Tashkandy, Nisreen ; Sabban, Sari ; Fakieh, Mohammad ; Meier-Kolthoff, Jan P. ; Huang, Sixing ; Tindall, Brian J. ; Rohde, Manfred ; Baeshen, Mohammed N. ; Baeshen, Nabih A. ; Lapidus, Alla ; Copeland, Alex ; Pillay, Manoj ; Reddy, T. B. K. ; Huntemann, Marcel ; Pati, Amrita ; Ivanova, Natalia ; Markowitz, Victor ; Woyke, Tanja ; Göker, Markus ; Klenk, Hans-Peter ; Kyrpides, Nikos C. ; Hahnke, Richard L.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c2435-71b98e3f04c613f6e897103ac066c9642f2cd2c9e4342f7cf77c6cd9f19578f23</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2016</creationdate><topic>Aerobic</topic><topic>Bacteroidetes</topic><topic>BASIC BIOLOGICAL SCIENCES</topic><topic>Carbohydrate active enzyme</topic><topic>Extended Genome Report</topic><topic>Flavobacteriaceae</topic><topic>GEBA</topic><topic>GGDC</topic><topic>Gliding motility</topic><topic>Greenhouse soil</topic><topic>KMG-1</topic><topic>Polysaccharide utilization loci</topic><topic>Tree of Life</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Tashkandy, Nisreen</creatorcontrib><creatorcontrib>Sabban, Sari</creatorcontrib><creatorcontrib>Fakieh, Mohammad</creatorcontrib><creatorcontrib>Meier-Kolthoff, Jan P.</creatorcontrib><creatorcontrib>Huang, Sixing</creatorcontrib><creatorcontrib>Tindall, Brian J.</creatorcontrib><creatorcontrib>Rohde, Manfred</creatorcontrib><creatorcontrib>Baeshen, Mohammed N.</creatorcontrib><creatorcontrib>Baeshen, Nabih A.</creatorcontrib><creatorcontrib>Lapidus, Alla</creatorcontrib><creatorcontrib>Copeland, Alex</creatorcontrib><creatorcontrib>Pillay, Manoj</creatorcontrib><creatorcontrib>Reddy, T. B. K.</creatorcontrib><creatorcontrib>Huntemann, Marcel</creatorcontrib><creatorcontrib>Pati, Amrita</creatorcontrib><creatorcontrib>Ivanova, Natalia</creatorcontrib><creatorcontrib>Markowitz, Victor</creatorcontrib><creatorcontrib>Woyke, Tanja</creatorcontrib><creatorcontrib>Göker, Markus</creatorcontrib><creatorcontrib>Klenk, Hans-Peter</creatorcontrib><creatorcontrib>Kyrpides, Nikos C.</creatorcontrib><creatorcontrib>Hahnke, Richard L.</creatorcontrib><creatorcontrib>Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>ProQuest - Health & Medical Complete保健、医学与药学数据库</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection (Proquest) (PQ_SDU_P3)</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>ProQuest Biological Science Journals</collection><collection>Publicly Available Content Database (Proquest) (PQ_SDU_P3)</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>OSTI.GOV - Hybrid</collection><collection>OSTI.GOV</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Environmental microbiome</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Tashkandy, Nisreen</au><au>Sabban, Sari</au><au>Fakieh, Mohammad</au><au>Meier-Kolthoff, Jan P.</au><au>Huang, Sixing</au><au>Tindall, Brian J.</au><au>Rohde, Manfred</au><au>Baeshen, Mohammed N.</au><au>Baeshen, Nabih A.</au><au>Lapidus, Alla</au><au>Copeland, Alex</au><au>Pillay, Manoj</au><au>Reddy, T. B. K.</au><au>Huntemann, Marcel</au><au>Pati, Amrita</au><au>Ivanova, Natalia</au><au>Markowitz, Victor</au><au>Woyke, Tanja</au><au>Göker, Markus</au><au>Klenk, Hans-Peter</au><au>Kyrpides, Nikos C.</au><au>Hahnke, Richard L.</au><aucorp>Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)</aucorp><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>High-quality draft genome sequence of Flavobacterium suncheonense GH29-5T (DSM 17707T) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5T</atitle><jtitle>Environmental microbiome</jtitle><date>2016-06-16</date><risdate>2016</risdate><volume>11</volume><issue>1</issue><artnum>42</artnum><issn>1944-3277</issn><eissn>1944-3277</eissn><eissn>2524-6372</eissn><abstract>Flavobacterium suncheonense
is a member of the family
Flavobacteriaceae
in the phylum
Bacteroidetes
. Strain GH29-5
T
(DSM 17707
T
) was isolated from greenhouse soil in Suncheon, South Korea.
F. suncheonense
GH29-5
T
is part of the
G
enomic
E
ncyclopedia of
B
acteria and
A
rchaea
project. The 2,880,663 bp long draft genome consists of 54 scaffolds with 2739 protein-coding genes and 82 RNA genes. The genome of strain GH29-5
T
has 117 genes encoding peptidases but a small number of genes encoding carbohydrate active enzymes (51 CAZymes). Metallo and serine peptidases were found most frequently. Among CAZymes, eight glycoside hydrolase families, nine glycosyl transferase families, two carbohydrate binding module families and four carbohydrate esterase families were identified. Suprisingly, polysaccharides utilization loci (PULs) were not found in strain GH29-5
T
. Based on the coherent physiological and genomic characteristics we suggest that
F. suncheonense
GH29-5
T
feeds rather on proteins than saccharides and lipids.</abstract><cop>London</cop><pub>BioMed Central</pub><pmid>27313837</pmid><doi>10.1186/s40793-016-0159-5</doi><oa>free_for_read</oa></addata></record> |
fulltext | fulltext |
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language | eng |
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source | PubMed; SpringerLink (Online service); Directory of Open Access Journals; Alma/SFX Local Collection; PubMed Central Open Access; Springer Nature OA Free Journals |
subjects | Aerobic Bacteroidetes BASIC BIOLOGICAL SCIENCES Carbohydrate active enzyme Extended Genome Report Flavobacteriaceae GEBA GGDC Gliding motility Greenhouse soil KMG-1 Polysaccharide utilization loci Tree of Life |
title | High-quality draft genome sequence of Flavobacterium suncheonense GH29-5T (DSM 17707T) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5T |
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