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Metagenome-assembled genome extraction and analysis from microbiomes using KBase
Author / Creator:Chivian, Dylan ; Jungbluth, Sean P. ; Dehal, Paramvir S. ; Wood-Charlson, Elisha M. ; Canon, Richard S. ; Allen, Benjamin H. ; Clark, Mikayla M. ; Gu, Tianhao ; Land, Miriam L. ; Price, Gavin A. ; Riehl, William J. ; Sneddon, Michael W. ; Sutormin, Roman ; Zhang, Qizhi ; Cottingham, Robert W. ; Henry, Chris S. ; Arkin, Adam P.
Publisher:London: Nature Publishing Group UK
Journal title:Nature protocols, 2023-01, Vol.18 (1), p.208-238
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Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Author / Creator:Bowers, Robert M ; Kyrpides, Nikos C ; Stepanauskas, Ramunas ; Harmon-Smith, Miranda ; Doud, Devin ; Reddy, T B K ; Schulz, Frederik ; Jarett, Jessica ; Rivers, Adam R ; Eloe-Fadrosh, Emiley A ; Tringe, Susannah G ; Ivanova, Natalia N ; Copeland, Alex ; Clum, Alicia ; Becraft, Eric D ; Malmstrom, Rex R ; Birren, Bruce ; Podar, Mircea ; Bork, Peer ; Weinstock, George M ; Garrity, George M ; Dodsworth, Jeremy A ; Yooseph, Shibu ; Sutton, Granger ; Glöckner, Frank O ; Gilbert, Jack A ; Nelson, William C ; Hallam, Steven J ; Jungbluth, Sean P ; Ettema, Thijs J G ; Tighe, Scott ; Konstantinidis, Konstantinos T ; Liu, Wen-Tso ; Baker, Brett J ; Rattei, Thomas ; Eisen, Jonathan A ; Hedlund, Brian ; McMahon, Katherine D ; Fierer, Noah ; Knight, Rob ; Finn, Rob ; Cochrane, Guy ; Karsch-Mizrachi, Ilene ; Tyson, Gene W ; Rinke, Christian ; Lapidus, Alla ; Meyer, Folker ; Yilmaz, Pelin ; Parks, Donovan H ; Murat Eren, A ; Schriml, Lynn ; Banfield, Jillian F ; Hugenholtz, Philip ; Woyke, Tanja
Publisher:New York: Nature Publishing Group US
Journal title:Nature biotechnology, 2017-08, Vol.35 (8), p.725-731
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Metagenome-assembled genome distribution and key functionality highlight importance of aerobic metabolism in Svalbard permafrost
Author / Creator:Xue, Yaxin ; Jonassen, Inge ; Øvreås, Lise ; Taş, Neslihan
Publisher:England: Oxford University Press
Journal title:FEMS microbiology ecology, 2020-05, Vol.96 (5), p.1
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Phylogenomic analysis of a metagenome-assembled genome indicates a new taxon of an anoxygenic phototroph bacterium in the family Chromatiaceae and the proposal of “Candidatus Thioaporhodococcus” gen....
Author / Creator:Amulyasai, Bakshi ; Anusha, Rai ; Sasikala, Chintalapati ; Ramana, Chintalapati Venkata
Publisher:Berlin: Springer Nature B.V
Journal title:Archives of microbiology, 2022-12, Vol.204 (12)
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Publisher Correction: Metagenome-assembled genome extraction and analysis from microbiomes using KBase
Author / Creator:Chivian, Dylan ; Jungbluth, Sean P. ; Dehal, Paramvir S. ; Wood-Charlson, Elisha M. ; Canon, Richard S. ; Allen, Benjamin H. ; Clark, Mikayla M. ; Gu, Tianhao ; Land, Miriam L. ; Price, Gavin A. ; Riehl, William J. ; Sneddon, Michael W. ; Sutormin, Roman ; Zhang, Qizhi ; Cottingham, Robert W. ; Henry, Chris S. ; Arkin, Adam P.
Publisher:London: Nature Publishing Group UK
Journal title:Nature protocols, 2023-02, Vol.18 (2), p.658-658
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Simulation of 69 microbial communities indicates sequencing depth and false positives are major drivers of bias in prokaryotic metagenome-assembled genome recovery
Author / Creator:Rocha, Ulisses ; Kasmanas, Jonas Coelho ; Toscan, Rodolfo ; Sanches, Danilo S. ; Magnusdottir, Stefania ; Saraiva, Joao Pedro
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2024-10, Vol.20 (10), p.e1012530
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Metagenome-assembled genome (MAG) of Oceancaulis alexandrii NP7 isolated from Mediterranean Sea polluted marine sediments and its bioremediation potential
Author / Creator:Dell’Anno, Filippo ; van Zyl, Leonardo Joaquim ; Trindade, Marla ; Brunet, Christophe ; Dell’Anno, Antonio ; Ianora, Adrianna ; Sansone, Clementina
Publisher:Oxford: Oxford University Press
Journal title:G3 : genes - genomes - genetics, 2021-09, Vol.11 (9)
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Correction: Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Author / Creator:Bowers, Robert M ; Kyrpides, Nikos C ; Stepanauskas, Ramunas ; Harmon-Smith, Miranda ; Doud, Devin ; Reddy, T B K ; Schulz, Frederik ; Jarett, Jessica ; Rivers, Adam R ; Eloe-Fadrosh, Emiley A ; Tringe, Susannah G ; Ivanova, Natalia N ; Copeland, Alex ; Clum, Alicia ; Becraft, Eric D ; Malmstrom, Rex R ; Birren, Bruce ; Podar, Mircea ; Bork, Peer ; Weinstock, George M ; Garrity, George M ; Dodsworth, Jeremy A ; Yooseph, Shibu ; Sutton, Granger ; Glöckner, Frank O ; Gilbert, Jack A ; Nelson, William C ; Hallam, Steven J ; Jungbluth, Sean P ; Ettema, Thijs J G ; Tighe, Scott ; Konstantinidis, Konstantinos T ; Liu, Wen-Tso ; Baker, Brett J ; Rattei, Thomas ; Eisen, Jonathan A ; Hedlund, Brian ; McMahon, Katherine D ; Fierer, Noah ; Knight, Rob ; Finn, Rob ; Cochrane, Guy ; Karsch-Mizrachi, Ilene ; Tyson, Gene W ; Rinke, Christian ; Lapidus, Alla ; Meyer, Folker ; Yilmaz, Pelin ; Parks, Donovan H ; Eren, A M ; Schriml, Lynn ; Banfield, Jillian F ; Hugenholtz, Philip ; Woyke, Tanja
Publisher:New York: Springer New York
Journal title:Nature biotechnology, 2018-07, Vol.36 (7), p.660-660
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Baseline metagenome-assembled genome (MAG) data of Sikkim hot springs from Indian Himalayan geothermal belt (IHGB) showcasing its potential CAZymes, and sulfur-nitrogen metabolic activity
Author / Creator:Das, Sayak ; Najar, Ishfaq Nabi ; Sherpa, Mingma Thundu ; Kumar, Santosh ; Sharma, Prayatna ; Mondal, Krishnendu ; Tamang, Sonia ; Thakur, Nagendra
Publisher:Oxford: Springer Nature B.V
Journal title:World journal of microbiology & biotechnology, 2023-07, Vol.39 (7), p.179
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Metagenome-assembled genome of a Chitinophaga sp. and its potential in plant biomass degradation, as well of affiliated Pandoraea and Labrys species
Author / Creator:Funnicelli Michelli Inácio Gonçalves ; Pinheiro, Daniel Guariz ; Gomes-Pepe, Elisângela Soares ; de Carvalho Lucas Amoroso Lopes ; Campanharo, João Carlos ; Fernandes, Camila Cesário ; Kishi, Luciano Takeshi ; Carareto Alves Lúcia Maria ; de Macedo Lemos Eliana Gertrudes
Publisher:Oxford: Springer Nature B.V
Journal title:World journal of microbiology & biotechnology, 2021-09, Vol.37 (9)
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Metagenome-assembled genome reveals species and functional composition of Jianghan chicken gut microbiota and isolation of Pediococcus acidilactic with probiotic properties
Author / Creator:Shen, Hongye ; Wang, Tinghui ; Dong, Weiwei ; Sun, Guoping ; Liu, Jun ; Peng, Nan ; Zhao, Shumiao
Publisher:England: BioMed Central Ltd
Journal title:Microbiome, 2024-02, Vol.12 (1), p.25-19, Article 25
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Methanogenesis and Salt Tolerance Genes of a Novel Halophilic Methanosarcinaceae Metagenome-Assembled Genome from a Former Solar Saltern
Author / Creator:Bueno de Mesquita, Clifton P. ; Zhou, Jinglie ; Theroux, Susanna M. ; Tringe, Susannah G.
Publisher:Switzerland: MDPI AG
Journal title:Genes, 2021-10, Vol.12 (10), p.1609
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Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Author / Creator:Bowers, Robert M ; Kyrpides, Nikos C ; Stepanauskas, Ramunas ; Harmon-Smith, Miranda ; Doud, Devin ; Reddy, T B K ; Schulz, Frederik ; Jarett, Jessica ; Rivers, Adam R ; Eloe-Fadrosh, Emiley A ; Tringe, Susannah G ; Ivanova, Natalia N ; Copeland, Alex ; Clum, Alicia ; Becraft, Eric D ; Malmstrom, Rex R ; Birren, Bruce ; Podar, Mircea ; Bork, Peer ; Weinstock, George M ; Garrity, George M ; Dodsworth, Jeremy A ; Yooseph, Shibu ; Sutton, Granger ; Glöckner, Frank O ; Gilbert, Jack A ; Nelson, William C ; Hallam, Steven J ; Jungbluth, Sean P ; Ettema, Thijs J G ; Tighe, Scott ; Konstantinidis, Konstantinos T ; Liu, Wen-Tso ; Baker, Brett J ; Rattei, Thomas ; Eisen, Jonathan A ; Hedlund, Brian ; McMahon, Katherine D ; Fierer, Noah ; Knight, Rob ; Finn, Rob ; Cochrane, Guy ; Karsch-Mizrachi, Ilene ; Tyson, Gene W ; Rinke, Christian ; Lapidus, Alla ; Meyer, Folker ; Yilmaz, Pelin ; Parks, Donovan H ; Eren, A M ; Schriml, Lynn ; Banfield, Jillian F ; Hugenholtz, Philip ; Woyke, Tanja
Publisher:United States: Nature Publishing Group
Journal title:Nature biotechnology, 2018-07, Vol.36 (7), p.660
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Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Author / Creator:Bowers, Robert M ; Kyrpides, Nikos C ; Stepanauskas, Ramunas ; Harmon-Smith, Miranda ; Doud, Devin ; Reddy, T B K ; Schulz, Frederik ; Jarett, Jessica ; Rivers, Adam R ; Eloe-Fadrosh, Emiley A ; Tringe, Susannah G ; Ivanova, Natalia N ; Copeland, Alex ; Clum, Alicia ; Becraft, Eric D ; Malmstrom, Rex R ; Birren, Bruce ; Podar, Mircea ; Bork, Peer ; Weinstock, George M ; Garrity, George M ; Dodsworth, Jeremy A ; Yooseph, Shibu ; Sutton, Granger ; Glöckner, Frank O ; Gilbert, Jack A ; Nelson, William C ; Hallam, Steven J ; Jungbluth, Sean P ; Ettema, Thijs J G ; Tighe, Scott ; Konstantinidis, Konstantinos T ; Liu, Wen-Tso ; Baker, Brett J ; Rattei, Thomas ; Eisen, Jonathan A ; Hedlund, Brian ; McMahon, Katherine D ; Fierer, Noah ; Knight, Rob ; Finn, Rob ; Cochrane, Guy ; Karsch-Mizrachi, Ilene ; Tyson, Gene W ; Rinke, Christian ; Lapidus, Alla ; Meyer, Folker ; Yilmaz, Pelin ; Parks, Donovan H ; Eren, A Murat ; Schriml, Lynn ; Banfield, Jillian F ; Hugenholtz, Philip ; Woyke, Tanja
Publisher:United States: Nature Publishing Group
Journal title:Nature biotechnology, 2018-02, Vol.36 (2), p.196
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Erratum: Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Author / Creator:Bowers, Robert M ; Kyrpides, Nikos C ; Stepanauskas, Ramunas ; Harmon-Smith, Miranda ; Doud, Devin ; Reddy, T B K ; Schulz, Frederik ; Jarett, Jessica ; Rivers, Adam R ; Eloe-Fadrosh, Emiley A ; Tringe, Susannah G ; Ivanova, Natalia N ; Copeland, Alex ; Clum, Alicia ; Becraft, Eric D ; Malmstrom, Rex R ; Birren, Bruce ; Podar, Mircea ; Bork, Peer ; Weinstock, George M ; Garrity, George M ; Dodsworth, Jeremy A ; Yooseph, Shibu ; Sutton, Granger ; Glöckner, Frank O ; Gilbert, Jack A ; Nelson, William C ; Hallam, Steven J ; Jungbluth, Sean P ; Ettema, Thijs J G ; Tighe, Scott ; Konstantinidis, Konstantinos T ; Liu, Wen-Tso ; Baker, Brett J ; Rattei, Thomas ; Eisen, Jonathan A ; Hedlund, Brian ; McMahon, Katherine D ; Fierer, Noah ; Knight, Rob ; Finn, Rob ; Cochrane, Guy ; Karsch-Mizrachi, Ilene ; Tyson, Gene W ; Rinke, Christian ; Lapidus, Alla ; Meyer, Folker ; Yilmaz, Pelin ; Parks, Donovan H ; Eren, A Murat ; Schriml, Lynn ; Banfield, Jillian F ; Hugenholtz, Philip ; Woyke, Tanja
Journal title:Nature biotechnology, 2018-02, Vol.36 (2), p.196-196
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Correction: Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Author / Creator:Bowers, Robert M ; Kyrpides, Nikos C ; Stepanauskas, Ramunas ; Harmon-Smith, Miranda ; Doud, Devin ; Reddy, T B K ; Schulz, Frederik ; Jarett, Jessica ; Rivers, Adam R ; Eloe-Fadrosh, Emiley A ; Tringe, Susannah G ; Ivanova, Natalia N ; Copeland, Alex ; Clum, Alicia ; Becraft, Eric D ; Malmstrom, Rex R ; Birren, Bruce ; Podar, Mircea ; Bork, Peer ; Weinstock, George M ; Garrity, George M ; Dodsworth, Jeremy A ; Yooseph, Shibu ; Sutton, Granger ; Glöckner, Frank O ; Gilbert, Jack A ; Nelson, William C ; Hallam, Steven J ; Jungbluth, Sean P ; Ettema, Thijs J G ; Tighe, Scott ; Konstantinidis, Konstantinos T ; Liu, Wen-Tso ; Baker, Brett J ; Rattei, Thomas ; Eisen, Jonathan A ; Hedlund, Brian ; McMahon, Katherine D ; Fierer, Noah ; Knight, Rob ; Finn, Rob ; Cochrane, Guy ; Karsch-Mizrachi, Ilene ; Tyson, Gene W ; Rinke, Christian ; Lapidus, Alla ; Meyer, Folker ; Yilmaz, Pelin ; Parks, Donovan H ; Eren, A Murat ; Schriml, Lynn ; Banfield, Jillian F ; Hugenholtz, Philip ; Woyke, Tanja
Publisher:New York: Nature Publishing Group US
Journal title:Nature biotechnology, 2018-02, Vol.36 (2), p.196-196
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Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Author / Creator:Bowers, Robert M. ; Kyrpides, Nikos C. ; Stepanauskas, Ramunas ; Harmon-Smith, Miranda ; Doud, Devin ; Reddy, T. B. K. ; Schulz, Frederik ; Jarett, Jessica ; Rivers, Adam R. ; Eloe-Fadrosh, Emiley A. ; Tringe, Susannah G. ; Ivanova, Natalia N. ; Copeland, Alex ; Clum, Alicia ; Becraft, Eric D. ; Malmstrom, Rex R. ; Birren, Bruce ; Podar, Mircea ; Bork, Peer ; Weinstock, George M. ; Garrity, George M. ; Dodsworth, Jeremy A. ; Yooseph, Shibu ; Sutton, Granger ; Glockner, Frank O. ; Gilbert, Jack A. ; Nelson, William C. ; Hallam, Steven J. ; Jungbluth, Sean P. ; Ettema, Thijs J. G. ; Tighe, Scott ; Konstantinidis, Konstantinos T. ; Liu, Wen -Tso ; Baker, Brett J. ; Rattei, Thomas ; Eisen, Jonathan A. ; Hedlund, Brian ; McMahon, Katherine D. ; Fierer, Noah ; Knight, Rob ; Finn, Rob ; Cochrane, Guy ; Karsch-Mizrachi, Ilene ; Tyson, Gene W. ; Rinke, Christian ; Lapidus, Alla ; Meyer, Folker ; Yilmaz, Pelin ; Parks, Donovan H. ; Eren, A. Murat ; Schriml, Lynn ; Banfield, Jillian F. ; Hugenholtz, Philip ; Woyke, Tanja
Publisher:United States: Springer Nature
Journal title:Nature biotechnology, 2017-08, Vol.36 (2)
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ArticlesPeer ReviewedFull Text
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Author / Creator:Bowers, Robert M. ; Kyrpides, Nikos C. ; Stepanauskas, Ramunas ; Harmon-Smith, Miranda ; Doud, Devin ; Reddy, T. B. K. ; Schulz, Frederik ; Jarett, Jessica ; Rivers, Adam R. ; Eloe-Fadrosh, Emiley A. ; Tringe, Susannah G. ; Ivanova, Natalia N. ; Copeland, Alex ; Clum, Alicia ; Becraft, Eric D. ; Malmstrom, Rex R. ; Birren, Bruce ; Podar, Mircea ; Bork, Peer ; Weinstock, George M. ; Garrity, George M. ; Dodsworth, Jeremy A. ; Yooseph, Shibu ; Sutton, Granger ; Glöckner, Frank O. ; Gilbert, Jack A. ; Nelson, William C. ; Hallam, Steven J. ; Jungbluth, Sean P. ; Ettema, Thijs J. G. ; Tighe, Scott ; Konstantinidis, Konstantinos T. ; Liu, Wen-Tso ; Baker, Brett J. ; Rattei, Thomas ; Eisen, Jonathan A. ; Hedlund, Brian ; McMahon, Katherine D. ; Fierer, Noah ; Knight, Rob ; Finn, Rob ; Cochrane, Guy ; Karsch-Mizrachi, Ilene ; Tyson, Gene W. ; Rinke, Christian ; Schriml, Lynn ; Hugenholtz, Philip ; Yilmaz, Pelin ; Meyer, Folker ; Lapidus, Alla ; Parks, Donovan H. ; Eren, A. M. ; Banfield, Jillian F. ; Woyke, Tanja
Publisher:United States: Springer Nature
Journal title:Nature biotechnology, 2017-08, Vol.35 (8)
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Accurate prediction of metagenome-assembled genome completeness by MAGISTA, a random forest model built on alignment-free intra-bin statistics
Author / Creator:Goussarov, Gleb ; Claesen, Jürgen ; Mysara, Mohamed ; Cleenwerck, Ilse ; Leys, Natalie ; Vandamme, Peter ; Van Houdt, Rob
Publisher:England: BioMed Central Ltd
Journal title:Environmental microbiome, 2022-03, Vol.17 (1), p.9-13, Article 9
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Phylogeny and Metabolic Potential of the Methanotrophic Lineage MO3 in Beijerinckiaceae from the Paddy Soil through Metagenome-Assembled Genome Reconstruction
Author / Creator:Cai, Yuanfeng ; Yun, Juanli ; Jia, Zhongjun
Publisher:Switzerland: MDPI AG
Journal title:Microorganisms (Basel), 2022-05, Vol.10 (5), p.955
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Metagenome-assembled genome extraction and analysis from microbiomes using KBase

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Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

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Metagenome-assembled genome distribution and key functionality highlight importance of aerobic metabolism in Svalbard permafrost

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Phylogenomic analysis of a metagenome-assembled genome indicates a new taxon of an anoxygenic phototroph bacterium in the family Chromatiaceae and the proposal of “Candidatus Thioaporhodococcus” gen....

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Publisher Correction: Metagenome-assembled genome extraction and analysis from microbiomes using KBase

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Simulation of 69 microbial communities indicates sequencing depth and false positives are major drivers of bias in prokaryotic metagenome-assembled genome recovery

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Metagenome-assembled genome (MAG) of Oceancaulis alexandrii NP7 isolated from Mediterranean Sea polluted marine sediments and its bioremediation potential

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Correction: Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

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Baseline metagenome-assembled genome (MAG) data of Sikkim hot springs from Indian Himalayan geothermal belt (IHGB) showcasing its potential CAZymes, and sulfur-nitrogen metabolic activity

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Metagenome-assembled genome of a Chitinophaga sp. and its potential in plant biomass degradation, as well of affiliated Pandoraea and Labrys species

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Metagenome-assembled genome reveals species and functional composition of Jianghan chicken gut microbiota and isolation of Pediococcus acidilactic with probiotic properties

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Methanogenesis and Salt Tolerance Genes of a Novel Halophilic Methanosarcinaceae Metagenome-Assembled Genome from a Former Solar Saltern

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Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

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Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

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Erratum: Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

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Correction: Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

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Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

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Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

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Accurate prediction of metagenome-assembled genome completeness by MAGISTA, a random forest model built on alignment-free intra-bin statistics

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Phylogeny and Metabolic Potential of the Methanotrophic Lineage MO3 in Beijerinckiaceae from the Paddy Soil through Metagenome-Assembled Genome Reconstruction

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