Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential.
Identifieur interne : 000736 ( Main/Exploration ); précédent : 000735; suivant : 000737Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential.
Auteurs : Lorena Carro [Royaume-Uni] ; Imen Nouioui [Royaume-Uni] ; Vartul Sangal [Royaume-Uni] ; Jan P. Meier-Kolthoff [Allemagne] ; Martha E. Trujillo [Espagne] ; Maria Del Carmen Montero-Calasanz [Royaume-Uni] ; Nevzat Sahin [Turquie] ; Darren Lee Smith [Royaume-Uni] ; Kristi E. Kim [États-Unis] ; Paul Peluso [États-Unis] ; Shweta Deshpande [États-Unis] ; Tanja Woyke [États-Unis] ; Nicole Shapiro [États-Unis] ; Nikos C. Kyrpides [États-Unis] ; Hans-Peter Klenk [Royaume-Uni] ; Markus Göker [Allemagne] ; Michael Goodfellow [Royaume-Uni]Source :
- Scientific reports [ 2045-2322 ] ; 2018.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Micromonospora.
- métabolisme : Micromonospora.
- méthodes : Microbiologie industrielle.
- classification : Composition en bases nucléiques, Génome bactérien, Micromonospora, Phylogenèse.
English descriptors
- KwdEn :
- MESH :
- classification : Micromonospora.
- genetics : Micromonospora.
- metabolism : Micromonospora.
- methods : Industrial Microbiology.
- Base Composition, Genome, Bacterial, Phylogeny.
Abstract
There is a need to clarify relationships within the actinobacterial genus Micromonospora, the type genus of the family Micromonosporaceae, given its biotechnological and ecological importance. Here, draft genomes of 40 Micromonospora type strains and two non-type strains are made available through the Genomic Encyclopedia of Bacteria and Archaea project and used to generate a phylogenomic tree which showed they could be assigned to well supported phyletic lines that were not evident in corresponding trees based on single and concatenated sequences of conserved genes. DNA G+C ratios derived from genome sequences showed that corresponding data from species descriptions were imprecise. Emended descriptions include precise base composition data and approximate genome sizes of the type strains. antiSMASH analyses of the draft genomes show that micromonosporae have a previously unrealised potential to synthesize novel specialized metabolites. Close to one thousand biosynthetic gene clusters were detected, including NRPS, PKS, terpenes and siderophores clusters that were discontinuously distributed thereby opening up the prospect of prioritising gifted strains for natural product discovery. The distribution of key stress related genes provide an insight into how micromonosporae adapt to key environmental variables. Genes associated with plant interactions highlight the potential use of micromonosporae in agriculture and biotechnology.
DOI: 10.1038/s41598-017-17392-0
PubMed: 29323202
PubMed Central: PMC5765111
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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Kyrpides</name><affiliation wicri:level="2"><nlm:affiliation>DOE Joint Genome Institute, Walnut Creek, California, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>DOE Joint Genome Institute, Walnut Creek, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Klenk, Hans Peter" sort="Klenk, Hans Peter" uniqKey="Klenk H" first="Hans-Peter" last="Klenk">Hans-Peter Klenk</name><affiliation wicri:level="1"><nlm:affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK. hans-peter.klenk@newcastle.ac.uk.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>School of Biology, Newcastle University, Newcastle upon Tyne</wicri:regionArea><wicri:noRegion>Newcastle upon Tyne</wicri:noRegion></affiliation></author><author><name sortKey="Goker, Markus" sort="Goker, Markus" uniqKey="Goker M" first="Markus" last="Göker">Markus Göker</name><affiliation wicri:level="1"><nlm:affiliation>Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig, Germany.</nlm:affiliation><country xml:lang="fr">Allemagne</country><wicri:regionArea>Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig</wicri:regionArea><wicri:noRegion>Braunschweig</wicri:noRegion><wicri:noRegion>Braunschweig</wicri:noRegion><wicri:noRegion>Braunschweig</wicri:noRegion></affiliation></author><author><name sortKey="Goodfellow, Michael" sort="Goodfellow, Michael" uniqKey="Goodfellow M" first="Michael" last="Goodfellow">Michael Goodfellow</name><affiliation wicri:level="1"><nlm:affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>School of Biology, Newcastle University, Newcastle upon Tyne</wicri:regionArea><wicri:noRegion>Newcastle upon Tyne</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2018">2018</date><idno type="RBID">pubmed:29323202</idno><idno type="pmid">29323202</idno><idno type="doi">10.1038/s41598-017-17392-0</idno><idno type="pmc">PMC5765111</idno><idno type="wicri:Area/Main/Corpus">000796</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">000796</idno><idno type="wicri:Area/Main/Curation">000796</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">000796</idno><idno type="wicri:Area/Main/Exploration">000796</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential.</title><author><name sortKey="Carro, Lorena" sort="Carro, Lorena" uniqKey="Carro L" first="Lorena" last="Carro">Lorena Carro</name><affiliation wicri:level="1"><nlm:affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK. lcg@usal.es.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>School of Biology, Newcastle University, Newcastle upon Tyne</wicri:regionArea><wicri:noRegion>Newcastle upon Tyne</wicri:noRegion></affiliation></author><author><name sortKey="Nouioui, Imen" sort="Nouioui, Imen" uniqKey="Nouioui I" first="Imen" last="Nouioui">Imen Nouioui</name><affiliation wicri:level="1"><nlm:affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>School of Biology, Newcastle University, Newcastle upon Tyne</wicri:regionArea><wicri:noRegion>Newcastle upon Tyne</wicri:noRegion></affiliation></author><author><name sortKey="Sangal, Vartul" sort="Sangal, Vartul" uniqKey="Sangal V" first="Vartul" last="Sangal">Vartul Sangal</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biomedical Sciences, Northumbria University, Newcastle upon Tyne, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Department of Biomedical Sciences, Northumbria University, Newcastle upon Tyne</wicri:regionArea><wicri:noRegion>Newcastle upon Tyne</wicri:noRegion></affiliation></author><author><name sortKey="Meier Kolthoff, Jan P" sort="Meier Kolthoff, Jan P" uniqKey="Meier Kolthoff J" first="Jan P" last="Meier-Kolthoff">Jan P. Meier-Kolthoff</name><affiliation wicri:level="1"><nlm:affiliation>Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig, Germany.</nlm:affiliation><country xml:lang="fr">Allemagne</country><wicri:regionArea>Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig</wicri:regionArea><wicri:noRegion>Braunschweig</wicri:noRegion><wicri:noRegion>Braunschweig</wicri:noRegion><wicri:noRegion>Braunschweig</wicri:noRegion></affiliation></author><author><name sortKey="Trujillo, Martha E" sort="Trujillo, Martha E" uniqKey="Trujillo M" first="Martha E" last="Trujillo">Martha E. Trujillo</name><affiliation wicri:level="1"><nlm:affiliation>Departamento de Microbiologia y Genetica, Lab 214, Universidad de Salamanca, Salamanca, Spain.</nlm:affiliation><country xml:lang="fr">Espagne</country><wicri:regionArea>Departamento de Microbiologia y Genetica, Lab 214, Universidad de Salamanca, Salamanca</wicri:regionArea><wicri:noRegion>Salamanca</wicri:noRegion></affiliation></author><author><name sortKey="Montero Calasanz, Maria Del Carmen" sort="Montero Calasanz, Maria Del Carmen" uniqKey="Montero Calasanz M" first="Maria Del Carmen" last="Montero-Calasanz">Maria Del Carmen Montero-Calasanz</name><affiliation wicri:level="1"><nlm:affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>School of Biology, Newcastle University, Newcastle upon Tyne</wicri:regionArea><wicri:noRegion>Newcastle upon Tyne</wicri:noRegion></affiliation></author><author><name sortKey="Sahin, Nevzat" sort="Sahin, Nevzat" uniqKey="Sahin N" first="Nevzat" last="Sahin">Nevzat Sahin</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biology, Faculty of Art and Science, Ondokuz Mayis University, Kurupelit-Samsun, Turkey.</nlm:affiliation><country xml:lang="fr">Turquie</country><wicri:regionArea>Department of Biology, Faculty of Art and Science, Ondokuz Mayis University, Kurupelit-Samsun</wicri:regionArea><wicri:noRegion>Kurupelit-Samsun</wicri:noRegion></affiliation></author><author><name sortKey="Smith, Darren Lee" sort="Smith, Darren Lee" uniqKey="Smith D" first="Darren Lee" last="Smith">Darren Lee Smith</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biomedical Sciences, Northumbria University, Newcastle upon Tyne, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>Department of Biomedical Sciences, Northumbria University, Newcastle upon Tyne</wicri:regionArea><wicri:noRegion>Newcastle upon Tyne</wicri:noRegion></affiliation></author><author><name sortKey="Kim, Kristi E" sort="Kim, Kristi E" uniqKey="Kim K" first="Kristi E" last="Kim">Kristi E. Kim</name><affiliation wicri:level="2"><nlm:affiliation>Pacific Biosciences, 1380 Willow Rd, Menlo Park, California, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Pacific Biosciences, 1380 Willow Rd, Menlo Park, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Peluso, Paul" sort="Peluso, Paul" uniqKey="Peluso P" first="Paul" last="Peluso">Paul Peluso</name><affiliation wicri:level="2"><nlm:affiliation>Pacific Biosciences, 1380 Willow Rd, Menlo Park, California, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Pacific Biosciences, 1380 Willow Rd, Menlo Park, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Deshpande, Shweta" sort="Deshpande, Shweta" uniqKey="Deshpande S" first="Shweta" last="Deshpande">Shweta Deshpande</name><affiliation wicri:level="2"><nlm:affiliation>DOE Joint Genome Institute, Walnut Creek, California, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>DOE Joint Genome Institute, Walnut Creek, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Woyke, Tanja" sort="Woyke, Tanja" uniqKey="Woyke T" first="Tanja" last="Woyke">Tanja Woyke</name><affiliation wicri:level="2"><nlm:affiliation>DOE Joint Genome Institute, Walnut Creek, California, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>DOE Joint Genome Institute, Walnut Creek, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Shapiro, Nicole" sort="Shapiro, Nicole" uniqKey="Shapiro N" first="Nicole" last="Shapiro">Nicole Shapiro</name><affiliation wicri:level="2"><nlm:affiliation>DOE Joint Genome Institute, Walnut Creek, California, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>DOE Joint Genome Institute, Walnut Creek, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Kyrpides, Nikos C" sort="Kyrpides, Nikos C" uniqKey="Kyrpides N" first="Nikos C" last="Kyrpides">Nikos C. Kyrpides</name><affiliation wicri:level="2"><nlm:affiliation>DOE Joint Genome Institute, Walnut Creek, California, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>DOE Joint Genome Institute, Walnut Creek, California</wicri:regionArea><placeName><region type="state">Californie</region></placeName></affiliation></author><author><name sortKey="Klenk, Hans Peter" sort="Klenk, Hans Peter" uniqKey="Klenk H" first="Hans-Peter" last="Klenk">Hans-Peter Klenk</name><affiliation wicri:level="1"><nlm:affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK. hans-peter.klenk@newcastle.ac.uk.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>School of Biology, Newcastle University, Newcastle upon Tyne</wicri:regionArea><wicri:noRegion>Newcastle upon Tyne</wicri:noRegion></affiliation></author><author><name sortKey="Goker, Markus" sort="Goker, Markus" uniqKey="Goker M" first="Markus" last="Göker">Markus Göker</name><affiliation wicri:level="1"><nlm:affiliation>Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig, Germany.</nlm:affiliation><country xml:lang="fr">Allemagne</country><wicri:regionArea>Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig</wicri:regionArea><wicri:noRegion>Braunschweig</wicri:noRegion><wicri:noRegion>Braunschweig</wicri:noRegion><wicri:noRegion>Braunschweig</wicri:noRegion></affiliation></author><author><name sortKey="Goodfellow, Michael" sort="Goodfellow, Michael" uniqKey="Goodfellow M" first="Michael" last="Goodfellow">Michael Goodfellow</name><affiliation wicri:level="1"><nlm:affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK.</nlm:affiliation><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>School of Biology, Newcastle University, Newcastle upon Tyne</wicri:regionArea><wicri:noRegion>Newcastle upon Tyne</wicri:noRegion></affiliation></author></analytic><series><title level="j">Scientific reports</title><idno type="eISSN">2045-2322</idno><imprint><date when="2018" type="published">2018</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Composition (MeSH)</term><term>Genome, Bacterial (MeSH)</term><term>Industrial Microbiology (methods)</term><term>Micromonospora (classification)</term><term>Micromonospora (genetics)</term><term>Micromonospora (metabolism)</term><term>Phylogeny (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Composition en bases nucléiques (MeSH)</term><term>Génome bactérien (MeSH)</term><term>Microbiologie industrielle (méthodes)</term><term>Micromonospora (classification)</term><term>Micromonospora (génétique)</term><term>Micromonospora (métabolisme)</term><term>Phylogenèse (MeSH)</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Micromonospora</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Micromonospora</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Micromonospora</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Micromonospora</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Industrial Microbiology</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Micromonospora</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Microbiologie industrielle</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Composition</term><term>Genome, Bacterial</term><term>Phylogeny</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="fr"><term>Composition en bases nucléiques</term><term>Génome bactérien</term><term>Micromonospora</term><term>Phylogenèse</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">There is a need to clarify relationships within the actinobacterial genus Micromonospora, the type genus of the family Micromonosporaceae, given its biotechnological and ecological importance. Here, draft genomes of 40 Micromonospora type strains and two non-type strains are made available through the Genomic Encyclopedia of Bacteria and Archaea project and used to generate a phylogenomic tree which showed they could be assigned to well supported phyletic lines that were not evident in corresponding trees based on single and concatenated sequences of conserved genes. DNA G+C ratios derived from genome sequences showed that corresponding data from species descriptions were imprecise. Emended descriptions include precise base composition data and approximate genome sizes of the type strains. antiSMASH analyses of the draft genomes show that micromonosporae have a previously unrealised potential to synthesize novel specialized metabolites. Close to one thousand biosynthetic gene clusters were detected, including NRPS, PKS, terpenes and siderophores clusters that were discontinuously distributed thereby opening up the prospect of prioritising gifted strains for natural product discovery. The distribution of key stress related genes provide an insight into how micromonosporae adapt to key environmental variables. Genes associated with plant interactions highlight the potential use of micromonosporae in agriculture and biotechnology.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">29323202</PMID><DateCompleted><Year>2018</Year><Month>11</Month><Day>14</Day></DateCompleted><DateRevised><Year>2019</Year><Month>01</Month><Day>11</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">2045-2322</ISSN><JournalIssue CitedMedium="Internet"><Volume>8</Volume><Issue>1</Issue><PubDate><Year>2018</Year><Month>01</Month><Day>11</Day></PubDate></JournalIssue><Title>Scientific reports</Title><ISOAbbreviation>Sci Rep</ISOAbbreviation></Journal><ArticleTitle>Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential.</ArticleTitle><Pagination><MedlinePgn>525</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1038/s41598-017-17392-0</ELocationID><Abstract><AbstractText>There is a need to clarify relationships within the actinobacterial genus Micromonospora, the type genus of the family Micromonosporaceae, given its biotechnological and ecological importance. Here, draft genomes of 40 Micromonospora type strains and two non-type strains are made available through the Genomic Encyclopedia of Bacteria and Archaea project and used to generate a phylogenomic tree which showed they could be assigned to well supported phyletic lines that were not evident in corresponding trees based on single and concatenated sequences of conserved genes. DNA G+C ratios derived from genome sequences showed that corresponding data from species descriptions were imprecise. Emended descriptions include precise base composition data and approximate genome sizes of the type strains. antiSMASH analyses of the draft genomes show that micromonosporae have a previously unrealised potential to synthesize novel specialized metabolites. Close to one thousand biosynthetic gene clusters were detected, including NRPS, PKS, terpenes and siderophores clusters that were discontinuously distributed thereby opening up the prospect of prioritising gifted strains for natural product discovery. The distribution of key stress related genes provide an insight into how micromonosporae adapt to key environmental variables. Genes associated with plant interactions highlight the potential use of micromonosporae in agriculture and biotechnology.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Carro</LastName><ForeName>Lorena</ForeName><Initials>L</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-8833-642X</Identifier><AffiliationInfo><Affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK. lcg@usal.es.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Nouioui</LastName><ForeName>Imen</ForeName><Initials>I</Initials><AffiliationInfo><Affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Sangal</LastName><ForeName>Vartul</ForeName><Initials>V</Initials><AffiliationInfo><Affiliation>Department of Biomedical Sciences, Northumbria University, Newcastle upon Tyne, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Meier-Kolthoff</LastName><ForeName>Jan P</ForeName><Initials>JP</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-9105-9814</Identifier><AffiliationInfo><Affiliation>Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig, Germany.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Trujillo</LastName><ForeName>Martha E</ForeName><Initials>ME</Initials><AffiliationInfo><Affiliation>Departamento de Microbiologia y Genetica, Lab 214, Universidad de Salamanca, Salamanca, Spain.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Montero-Calasanz</LastName><ForeName>Maria Del Carmen</ForeName><Initials>MDC</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-2373-3683</Identifier><AffiliationInfo><Affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Sahin</LastName><ForeName>Nevzat</ForeName><Initials>N</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-6026-656X</Identifier><AffiliationInfo><Affiliation>Department of Biology, Faculty of Art and Science, Ondokuz Mayis University, Kurupelit-Samsun, Turkey.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Smith</LastName><ForeName>Darren Lee</ForeName><Initials>DL</Initials><AffiliationInfo><Affiliation>Department of Biomedical Sciences, Northumbria University, Newcastle upon Tyne, UK.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kim</LastName><ForeName>Kristi E</ForeName><Initials>KE</Initials><AffiliationInfo><Affiliation>Pacific Biosciences, 1380 Willow Rd, Menlo Park, California, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Peluso</LastName><ForeName>Paul</ForeName><Initials>P</Initials><AffiliationInfo><Affiliation>Pacific Biosciences, 1380 Willow Rd, Menlo Park, California, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Deshpande</LastName><ForeName>Shweta</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>DOE Joint Genome Institute, Walnut Creek, California, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Woyke</LastName><ForeName>Tanja</ForeName><Initials>T</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-9485-5637</Identifier><AffiliationInfo><Affiliation>DOE Joint Genome Institute, Walnut Creek, California, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Shapiro</LastName><ForeName>Nicole</ForeName><Initials>N</Initials><AffiliationInfo><Affiliation>DOE Joint Genome Institute, Walnut Creek, California, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kyrpides</LastName><ForeName>Nikos C</ForeName><Initials>NC</Initials><AffiliationInfo><Affiliation>DOE Joint Genome Institute, Walnut Creek, California, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Klenk</LastName><ForeName>Hans-Peter</ForeName><Initials>HP</Initials><AffiliationInfo><Affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK. hans-peter.klenk@newcastle.ac.uk.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Göker</LastName><ForeName>Markus</ForeName><Initials>M</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-5144-6200</Identifier><AffiliationInfo><Affiliation>Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, Braunschweig, Germany.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Goodfellow</LastName><ForeName>Michael</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>School of Biology, Newcastle University, Newcastle upon Tyne, UK.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2018</Year><Month>01</Month><Day>11</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Sci Rep</MedlineTA><NlmUniqueID>101563288</NlmUniqueID><ISSNLinking>2045-2322</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D001482" MajorTopicYN="N">Base Composition</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D016680" MajorTopicYN="Y">Genome, Bacterial</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D007218" MajorTopicYN="N">Industrial Microbiology</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D008847" 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