Works by Ivanova, Natalia N.

Results: 55

Medicago root nodule microbiomes: insights into a complex ecosystem with potential candidates for plant growth promotion.

Published in:

Plant & Soil, 2022, v. 471, n. 1/2, p. 507, doi. 10.1007/s11104-021-05247-7

By:

Martínez-Hidalgo, Pilar;
Humm, Ethan A.;
Still, David W.;
Shi, Baochen;
Pellegrini, Matteo;
de la Roca, Gabriela;
Veliz, Esteban;
Maymon, Maskit;
Bru, Pierrick;
Huntemann, Marcel;
Clum, Alicia;
Palaniappan, Krishnaveni;
Varghese, Neha;
Mukherjee, Supratim;
Reddy, T. B. K.;
Daum, Chris;
Ivanova, Natalia N.;
Kyrpides, Nikos C.;
Shapiro, Nicole;
Eloe-Fadrosh, Emiley A.

Publication type:

Article

Complete genome sequence of Jiangella gansuensis strain YIM 002T (DSM 44835T), the type species of the genus Jiangella and source of new antibiotic compounds.

Published in:

Standards in Genomic Sciences, 2017, v. 12, p. 1, doi. 10.1186/s40793-017-0226-6

By:

Jian-Yu Jiao;
Carro, Lorena;
Lan Liu;
Xiao-Yang Gao;
Xiao-Tong Zhang;
Hozzein, Wael N.;
Lapidus, Alla;
Huntemann, Marcel;
Reddy, T. B. K.;
Varghese, Neha;
Hadjithomas, Michalis;
Ivanova, Natalia N.;
Göker, Markus;
Pillay, Manoj;
Eisen, Jonathan A.;
Woyke, Tanja;
Klenk, Hans-Peter;
Kyrpides, Nikos C.;
Wen-Jun Li

Publication type:

Article

Comparing polysaccharide decomposition between the type strains Gramella echinicola KMM 6050T (DSM 19838T) and Gramella portivictoriae UST040801-001T (DSM 23547T), and emended description of Gramella echinicola Nedashkovskaya et al. 2005 emend. Shahina et al. 2014 and Gramella portivictoriae Lau et al. 2005

Published in:

Standards in Genomic Sciences, 2016, v. 11, p. 1, doi. 10.1186/s40793-016-0163-9

By:

Panschin, Irina;
Sixing Huang;
Meier-Kolthoff, Jan P.;
Tindall, Brian J.;
Rohde, Manfred;
Verbarg, Susanne;
Lapidus, Alla;
Han, James;
Trong, Stephan;
Haynes, Matthew;
Reddy, T. B. K.;
Huntemann, Marcel;
Pati, Amrita;
Ivanova, Natalia N.;
Mavromatis, Konstantinos;
Markowitz, Victor;
Woyke, Tanja;
Göker, Markus;
Klenk, Hans-Peter;
Kyrpides, Nikos C.

Publication type:

Article

High quality draft genome sequence of Meganema perideroedes str. Gr1T and a proposal for its reclassification to the family Meganemaceae fam. nov.

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/s40793-015-0013-1

By:

McIlroy, Simon J.;
Lapidus, Alla;
Thomsen, Trine R.;
Han, James;
Haynes, Matthew;
Lobos, Elizabeth;
Huntemann, Marcel;
Pati, Amrita;
Ivanova, Natalia N.;
Markowitz, Victor;
Verbarg, Susanne;
Woyke, Tanja;
Klenk, Hans-Peter;
Kyrpides, Nikos;
Nielsen, Per H.

Publication type:

Article

High-quality permanent draft genome sequence of the extremely osmotolerant diphenol degrading bacterium Halotalea alkalilenta AW-7T, and emended description of the genus Halotalea.

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/s40793-015-0052-7

By:

Ntougias, Spyridon;
Lapidus, Alla;
Copeland, Alex;
Reddy, T. B. K.;
Pati, Amrita;
Ivanova, Natalia N.;
Markowitz, Victor M.;
Klenk, Hans-Peter;
Woyke, Tanja;
Fasseas, Constantinos;
Kyrpides, Nikos C.;
Zervakis, Georgios I.

Publication type:

Article

Genome sequence of the pink-pigmented marine bacterium Loktanella hongkongensis type strain (UST950701-009PT), a representative of the Roseobacter group.

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/s40793-015-0050-9

By:

Lau, Stanley C. K.;
Riedel, Thomas;
Fiebig, Anne;
Han, James;
Huntemann, Marcel;
Petersen, Jörn;
Ivanova, Natalia N.;
Markowitz, Victor;
Woyke, Tanja;
Göker, Markus;
Kyrpides, Nikos C.;
Klenk, Hans-Peter;
Pei-Yuan Qian

Publication type:

Article

High quality draft genome sequence of Brachymonas chironomi AIMA4T (DSM 19884T) isolated from a Chironomus sp. egg mass.

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/s40793-015-0010-4

By:

Laviad, Sivan;
Lapidus, Alla;
Han, James;
Haynes, Matthew;
Reddy, T. B. K.;
Huntemann, Marcel;
Pati, Amrita;
Ivanova, Natalia N.;
Mavromatis, Konstantinos;
Lang, Elke;
Rohde, Manfred;
Markowitz, Victor;
Woyke, Tanja;
Klenk, Hans-Peter;
Kyrpides, Nikos C.;
Halpern, Malka

Publication type:

Article

High-quality permanent draft genome sequence of the Parapiptadenia rigida-nodulating Cupriavidus sp. strain UYPR2.512.

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/1944-3277-10-13

By:

De Meyer, Sofie E.;
Fabiano, Elena;
Tian, Rui;
Van Berkum, Peter;
Seshadri, Rekha;
Reddy, T. B. K.;
Markowitz, Victor;
Ivanova, Natalia N.;
Pati, Amrita;
Woyke, Tanja;
Howieson, John;
Kyrpides, Nikos C.;
Reeve, Wayne

Publication type:

Article

Draft genome sequence of Halomonas lutea strain YIM 91125T (DSM 23508T) isolated from the alkaline Lake Ebinur in Northwest China.

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/1944-3277-10-1

By:

Gao, Xiao-Yang;
Zhi, Xiao-Yang;
Li, Hong-Wei;
Yu Zhou;
Alla Lapidus;
James Han;
Haynes, Matthew;
Lobos, Elizabeth;
Huntemann, Marcel;
Pati, Amrita;
Ivanova, Natalia N.;
Mavromatis, Konstantinos;
Tindall, Brian J.;
Markowitz, Victor;
Woyke, Tanja;
Klenk, Hans-Peter;
Kyrpides, Nikos C.;
Wen-Jun Li

Publication type:

Article

The integrated microbial genomes system: an expanding comparative analysis resource.

Published in:

Nucleic Acids Research, 2010, v. 38, p. D382, doi. 10.1093/nar/gkp887

By:

Markowitz, Victor M.;
Chen, I-Min A.;
Palaniappan, Krishna;
Ken Chu;
Szeto, Ernest;
Grechkin, Yuri;
Ratner, Anna;
Anderson, Iain;
Lykidis, Athanasios;
Mavromatis, Konstantinos;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

IMG/M: a data management and analysis system for metagenomes.

Published in:

Nucleic Acids Research, 2008, v. 36, p. D534

By:

Markowitz, Victor M.;
Ivanova, Natalia N.;
Szeto, Ernest;
Palaniappan, Krishna;
Chu, Ken;
Dalevi, Daniel;
Chen, I-Min A.;
Grechkin, Yuri;
Dubchak, Inna;
Anderson, Iain;
Lykidis, Athanasios;
Mavromatis, Konstantinos;
Hugenholtz, Philip;
Kyrpides, Nikos C.

Publication type:

Article

The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions.

Published in:

Nucleic Acids Research, 2008, v. 36, p. D528

By:

Markowitz, Victor M.;
Szeto, Ernest;
Palaniappan, Krishna;
Grechkin, Yuri;
Chu, Ken;
Chen, I-Min A.;
Dubchak, Inna;
Anderson, Iain;
Lykidis, Athanasios;
Mavromatis, Konstantinos;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

Supporting community annotation and user collaboration in the integrated microbial genomes (IMG) system.

Published in:

BMC Genomics, 2016, v. 17, p. 1, doi. 10.1186/s12864-016-2629-y

By:

Chen, I-Min A.;
Markowitz, Victor M.;
Palaniappan, Krishna;
Szeto, Ernest;
Chu, Ken;
Jinghua Huang;
Ratner, Anna;
Pillay, Manoj;
Hadjithomas, Michalis;
Huntemann, Marcel;
Mikhailova, Natalia;
Ovchinnikova, Galina;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

Insights into the phylogeny and coding potential of microbial dark matter.

Published in:

Nature, 2013, v. 499, n. 7459, p. 431, doi. 10.1038/nature12352

By:

Rinke, Christian;
Schwientek, Patrick;
Sczyrba, Alexander;
Ivanova, Natalia N.;
Anderson, Iain J.;
Cheng, Jan-Fang;
Darling, Aaron;
Malfatti, Stephanie;
Swan, Brandon K.;
Gies, Esther A.;
Dodsworth, Jeremy A.;
Hedlund, Brian P.;
Tsiamis, George;
Sievert, Stefan M.;
Liu, Wen-Tso;
Eisen, Jonathan A.;
Hallam, Steven J.;
Kyrpides, Nikos C.;
Stepanauskas, Ramunas;
Rubin, Edward M.

Publication type:

Article

A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea.

Published in:

Nature, 2009, v. 462, n. 7276, p. 1056, doi. 10.1038/nature08656

By:

Dongying Wu;
Hugenholtz, Philip;
Mavromatis, Konstantinos;
Pukall, Rüdiger;
Dalin, Eileen;
Ivanova, Natalia N.;
Kunin, Victor;
Goodwin, Lynne;
Wu, Martin;
Tindall, Brian J.;
Hooper, Sean D.;
Pati, Amrita;
Lykidis, Athanasios;
Spring, Stefan;
Anderson, Iain J.;
D'haeseleer, Patrik;
Zemla, Adam;
Singer, Mitchell;
Lapidus, Alla;
Nolan, Matt

Publication type:

Article

Facile Recoding of Selenocysteine in Nature.

Published in:

Angewandte Chemie International Edition, 2016, v. 55, n. 17, p. 5337, doi. 10.1002/anie.201511657

By:

Mukai, Takahito;
Englert, Markus;
Tripp, H. James;
Miller, Corwin;
Ivanova, Natalia N.;
Rubin, Edward M.;
Kyrpides, Nikos C.;
Söll, Dieter

Publication type:

Article

Genome-Based Taxonomic Classification of Bacteroidetes.

Published in:

Frontiers in Microbiology, 2016, v. 7, p. 1, doi. 10.3389/fmicb.2016.02003

By:

Hahnke, Richard L.;
Meier-Kolthoff, Jan P.;
García-López, Marina;
Mukherjee, Supratim;
Huntemann, Marcel;
Ivanova, Natalia N.;
Woyke, Tanja;
Kyrpides, Nikos C.;
Klenk, Hans-Peter;
Göker, Markus

Publication type:

Article

Leichte Neucodierung von Selenocystein in der Natur.

Published in:

Angewandte Chemie, 2016, v. 128, n. 17, p. 5423, doi. 10.1002/ange.201511657

By:

Mukai, Takahito;
Englert, Markus;
Tripp, H. James;
Miller, Corwin;
Ivanova, Natalia N.;
Rubin, Edward M.;
Kyrpides, Nikos C.;
Söll, Dieter

Publication type:

Article

Functional Genomics of Novel Secondary Metabolites from Diverse Cyanobacteria Using Untargeted Metabolomics.

Published in:

Marine Drugs, 2013, v. 11, n. 10, p. 3617, doi. 10.3390/md11103617

By:

Baran, Richard;
Ivanova, Natalia N.;
Jose, Nick;
Garcia-Pichel, Ferran;
Kyrpides, Nikos C.;
Gugger, Muriel;
Northen, Trent R.

Publication type:

Article

Estimating DNA coverage and abundance in metagenomes using a gamma approximation.

Published in:

Bioinformatics, 2010, v. 26, n. 3, p. 295, doi. 10.1093/bioinformatics/btp687

By:

Hooper, Sean D.;
Dalevi, Daniel;
Pati, Amrita;
Mavromatis, Konstantinos;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

IMG ER: a system for microbial genome annotation expert review and curation.

Published in:

Bioinformatics, 2009, v. 25, n. 17, p. 2271, doi. 10.1093/bioinformatics/btp393

By:

Markowitz, Victor M.;
Mavromatis, Konstantinos;
Ivanova, Natalia N.;
Chen, I-Min A.;
Chu, Ken;
Kyrpides, Nikos C.

Publication type:

Article

Annotation of metagenome short reads using proxygenes.

Published in:

Bioinformatics, 2008, v. 24, n. 16, p. i7, doi. 10.1093/bioinformatics/btn276

By:

Daniel Dalevi;
Natalia N. Ivanova;
Konstantinos Mavromatis;
Sean D. Hooper;
Ernest Szeto;
Philip Hugenholtz;
Nikos C. Kyrpides;
Victor M. Markowitz

Publication type:

Article

Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials.

Published in:

Scientific Data, 2019, v. 6, n. 1, p. N.PAG, doi. 10.1038/s41597-019-0222-3

By:

Högfors-Rönnholm, Eva;
Lopez-Fernandez, Margarita;
Christel, Stephan;
Brambilla, Diego;
Huntemann, Marcel;
Clum, Alicia;
Foster, Brian;
Foster, Bryce;
Roux, Simon;
Palaniappan, Krishnaveni;
Varghese, Neha;
Mukherjee, Supratim;
Reddy, T. B. K.;
Daum, Chris;
Copeland, Alex;
Chen, I-Min A.;
Ivanova, Natalia N.;
Kyrpides, Nikos C.;
Harmon-Smith, Miranda;
Eloe-Fadrosh, Emiley A.

Publication type:

Article

Metagenomic investigation of the geologically unique Hellenic Volcanic Arc reveals a distinctive ecosystem with unexpected physiology.

Published in:

Environmental Microbiology, 2016, v. 18, n. 4, p. 1122, doi. 10.1111/1462-2920.13095

By:

Oulas, Anastasis;
Polymenakou, Paraskevi N.;
Seshadri, Rekha;
Tripp, H. James;
Mandalakis, Manolis;
Paez ‐ Espino, A. David;
Pati, Amrita;
Chain, Patrick;
Nomikou, Paraskevi;
Carey, Steven;
Kilias, Stephanos;
Christakis, Christos;
Kotoulas, Georgios;
Magoulas, Antonios;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

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

Published in:

Nature Biotechnology, 2018, v. 36, n. 7, p. 660, doi. 10.1038/nbt0718-660a

By:

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

Publication type:

Article

Erratum: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life.

Published in:

Nature Biotechnology, 2018, v. 36, n. 4, p. 368, doi. 10.1038/nbt0418-368c

By:

Mukherjee, Supratim;
Seshadri, Rekha;
Varghese, Neha J;
Eloe-Fadrosh, Emiley A;
Meier-Kolthoff, Jan P;
Göker, Markus;
Coates, R Cameron;
Hadjithomas, Michalis;
Pavlopoulos, Georgios A;
Paez-Espino, David;
Yoshikuni, Yasuo;
Visel, Axel;
Whitman, William B;
Garrity, George M;
Eisen, Jonathan A;
Hugenholtz, Philip;
Pati, Amrita;
Ivanova, Natalia N;
Woyke, Tanja;
Klenk, Hans-Peter

Publication type:

Article

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

Published in:

Nature Biotechnology, 2018, v. 36, n. 2, p. 196, doi. 10.1038/nbt0218-196a

By:

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

Publication type:

Article

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

Published in:

Nature Biotechnology, 2017, v. 35, n. 8, p. 725, doi. 10.1038/nbt.3893

By:

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

Publication type:

Article

1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life.

Published in:

Nature Biotechnology, 2017, v. 35, n. 7, p. 676, doi. 10.1038/nbt.3886

By:

Mukherjee, Supratim;
Seshadri, Rekha;
Varghese, Neha J;
Eloe-Fadrosh, Emiley A;
Meier-Kolthoff, Jan P;
Göker, Markus;
Coates, R Cameron;
Hadjithomas, Michalis;
Pavlopoulos, Georgios A;
Paez-Espino, David;
Yoshikuni, Yasuo;
Visel, Axel;
Whitman, William B;
Garrity, George M;
Eisen, Jonathan A;
Hugenholtz, Philip;
Pati, Amrita;
Ivanova, Natalia N;
Woyke, Tanja;
Klenk, Hans-Peter

Publication type:

Article

IMG/VR v4: an expanded database of uncultivated virus genomes within a framework of extensive functional, taxonomic, and ecological metadata.

Published in:

Nucleic Acids Research, 2023, v. 51, n. D1, p. D733, doi. 10.1093/nar/gkac1037

By:

Camargo, Antonio Pedro;
Nayfach, Stephen;
Chen, I-Min A;
Palaniappan, Krishnaveni;
Ratner, Anna;
Chu, Ken;
Ritter, Stephan J;
Reddy, T B K;
Mukherjee, Supratim;
Schulz, Frederik;
Call, Lee;
Neches, Russell Y;
Woyke, Tanja;
Ivanova, Natalia N;
Eloe-Fadrosh, Emiley A;
Kyrpides, Nikos C;
Roux, Simon

Publication type:

Article

Deeplasmid: deep learning accurately separates plasmids from bacterial chromosomes.

Published in:

Nucleic Acids Research, 2022, v. 50, n. 3, p. e17, doi. 10.1093/nar/gkab1115

By:

Andreopoulos, William B;
Geller, Alexander M;
Lucke, Miriam;
Balewski, Jan;
Clum, Alicia;
Ivanova, Natalia N;
Levy, Asaf

Publication type:

Article

IMG-ABC v.5.0: an update to the IMG/Atlas of Biosynthetic Gene Clusters Knowledgebase.

Published in:

Nucleic Acids Research, 2020, v. 48, n. D1, p. D422, doi. 10.1093/nar/gkz932

By:

Palaniappan, Krishnaveni;
Chen, I-Min A;
Chu, Ken;
Ratner, Anna;
Seshadri, Rekha;
Kyrpides, Nikos C;
Ivanova, Natalia N;
Mouncey, Nigel J

Publication type:

Article

IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. D1, p. D666, doi. 10.1093/nar/gky901

By:

Chen, I-Min A;
Chu, Ken;
Palaniappan, Krishna;
Pillay, Manoj;
Ratner, Anna;
Huang, Jinghua;
Huntemann, Marcel;
Varghese, Neha;
White, James R;
Seshadri, Rekha;
Smirnova, Tatyana;
Kirton, Edward;
Jungbluth, Sean P;
Woyke, Tanja;
Eloe-Fadrosh, Emiley A;
Ivanova, Natalia N;
Kyrpides, Nikos C

Publication type:

Article

IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. D1, p. D678, doi. 10.1093/nar/gky1127

By:

Paez-Espino, David;
Roux, Simon;
Chen, I-Min A;
Palaniappan, Krishna;
Ratner, Anna;
Chu, Ken;
Huntemann, Marcel;
Reddy, T B K;
Pons, Joan Carles;
Llabrés, Mercè;
Eloe-Fadrosh, Emiley A;
Ivanova, Natalia N;
Kyrpides, Nikos C

Publication type:

Article

Transfer RNAs with novel cloverleaf structures.

Published in:

Nucleic Acids Research, 2017, v. 45, n. 5, p. 2776, doi. 10.1093/nar/gkw898

By:

Mukai, Takahito;
Vargas-Rodriguez, Oscar;
Englert, Markus;
Tripp, H. James;
Ivanova, Natalia N.;
Rubin, Edward M.;
Kyrpides, Nikos C.;
Söll, Dieter

Publication type:

Article

IMG-ABC: new features for bacterial secondary metabolism analysis and targeted biosynthetic gene cluster discovery in thousands of microbial genomes.

Published in:

Nucleic Acids Research, 2017, v. 45, n. D1, p. D560, doi. 10.1093/nar/gkw1103

By:

Hadjithomas, Michalis;
I-Min A. Chen;
Ken Chu;
Jinghua Huang;
Ratner, Anna;
Palaniappan, Krishna;
Andersen, Evan;
Markowitz, Victor;
Kyrpides, Nikos C.;
Ivanova, Natalia N.

Publication type:

Article

IMG/M: integrated genome and metagenome comparative data analysis system.

Published in:

Nucleic Acids Research, 2017, v. 45, n. D1, p. D507, doi. 10.1093/nar/gkw929

By:

Chen, I.-Min A.;
Markowitz, Victor M.;
Ken Chu;
Palaniappan, Krishna;
Szeto, Ernest;
Pillay, Manoj;
Ratner, Anna;
Jinghua Huang;
Andersen, Evan;
Huntemann, Marcel;
Varghese, Neha;
Hadjithomas, Michalis;
Tennessen, Kristin;
Nielsen, Torben;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

IMG 4 version of the integrated microbial genomes comparative analysis system.

Published in:

Nucleic Acids Research, 2014, v. 42, n. D1, p. D560, doi. 10.1093/nar/gkt963

By:

Markowitz, Victor M.;
Chen, I-Min A.;
Palaniappan, Krishna;
Chu, Ken;
Szeto, Ernest;
Pillay, Manoj;
Ratner, Anna;
Huang, Jinghua;
Woyke, Tanja;
Huntemann, Marcel;
Anderson, Iain;
Billis, Konstantinos;
Varghese, Neha;
Mavromatis, Konstantinos;
Pati, Amrita;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

IMG/M 4 version of the integrated metagenome comparative analysis system.

Published in:

Nucleic Acids Research, 2014, v. 42, n. D1, p. D568, doi. 10.1093/nar/gkt919

By:

Markowitz, Victor M.;
Chen, I-Min A.;
Chu, Ken;
Szeto, Ernest;
Palaniappan, Krishna;
Pillay, Manoj;
Ratner, Anna;
Huang, Jinghua;
Pagani, Ioanna;
Tringe, Susannah;
Huntemann, Marcel;
Billis, Konstantinos;
Varghese, Neha;
Tennessen, Kristin;
Mavromatis, Konstantinos;
Pati, Amrita;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

IMG: the integrated microbial genomes database and comparative analysis system.

Published in:

Nucleic Acids Research, 2012, p. D115, doi. 10.1093/nar/gkr1044

By:

Markowitz, Victor M.;
Chen, I-Min A.;
Palaniappan, Krishna;
Chu, Ken;
Szeto, Ernest;
Grechkin, Yuri;
Ratner, Anna;
Jacob, Biju;
Huang, Jinghua;
Williams, Peter;
Huntemann, Marcel;
Anderson, Iain;
Mavromatis, Konstantinos;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

IMG/M: the integrated metagenome data management and comparative analysis system.

Published in:

Nucleic Acids Research, 2012, p. D123, doi. 10.1093/nar/gkr975

By:

Markowitz, Victor M.;
Chen, I-Min A.;
Chu, Ken;
Szeto, Ernest;
Palaniappan, Krishna;
Grechkin, Yuri;
Ratner, Anna;
Jacob, Biju;
Pati, Amrita;
Huntemann, Marcel;
Liolios, Konstantinos;
Pagani, Ioanna;
Anderson, Iain;
Mavromatis, Konstantinos;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs.

Published in:

Nature Communications, 2016, v. 7, n. 1, p. 10476, doi. 10.1038/ncomms10476

By:

Eloe-Fadrosh, Emiley A.;
Paez-Espino, David;
Jarett, Jessica;
Dunfield, Peter F.;
Hedlund, Brian P.;
Dekas, Anne E.;
Grasby, Stephen E.;
Brady, Allyson L.;
Dong, Hailiang;
Briggs, Brandon R.;
Li, Wen-Jun;
Goudeau, Danielle;
Malmstrom, Rex;
Pati, Amrita;
Pett-Ridge, Jennifer;
Rubin, Edward M.;
Woyke, Tanja;
Kyrpides, Nikos C.;
Ivanova, Natalia N.

Publication type:

Article

Symbiosis insights through metagenomic analysis of a microbial consortium.

Published in:

Nature, 2006, v. 443, n. 7114, p. 950, doi. 10.1038/nature05192

By:

Woyke, Tanja;
Teeling, Hanno;
Ivanova, Natalia N.;
Huntemann, Marcel;
Richter, Michael;
Gloeckner, Frank Oliver;
Boffelli, Dario;
Anderson, Iain J.;
Barry, Kerrie W.;
Shapiro, Harris J.;
Szeto, Ernest;
Kyrpides, Nikos C.;
Mussmann, Marc;
Amann, Rudolf;
Bergin, Claudia;
Ruehland, Caroline;
Rubin, Edward M.;
Dubilier, Nicole

Publication type:

Article

Discovery of Novel Plant Interaction Determinants from the Genomes of 163 Root Nodule Bacteria.

Published in:

Scientific Reports, 2015, p. 16825, doi. 10.1038/srep16825

By:

Kyrpides, Nikos C.;
Seshadri, Rekha;
Tennessen, Kristin;
Woyke, Tanja;
Ivanova, Natalia N.;
Reeve, Wayne G.;
Ardley, Julie K.

Publication type:

Article

Improving Microbial Genome Annotations in an Integrated Database Context.

Published in:

PLoS ONE, 2013, v. 8, n. 2, p. 1, doi. 10.1371/journal.pone.0054859

By:

Chen, I-Min A.;
Markowitz, Victor M.;
Chu, Ken;
Anderson, Iain;
Mavromatis, Konstantinos;
Kyrpides, Nikos C.;
Ivanova, Natalia N.

Publication type:

Article

IMG/M-HMP: A Metagenome Comparative Analysis System for the Human Microbiome Project.

Published in:

PLoS ONE, 2012, v. 7, n. 7, p. 1, doi. 10.1371/journal.pone.0040151

By:

Markowitz, Victor M.;
Chen, I-Min A.;
Chu, Ken;
Szeto, Ernest;
Palaniappan, Krishna;
Jacob, Biju;
Ratner, Anna;
Liolios, Konstantinos;
Pagani, Ioanna;
Huntemann, Marcel;
Mavromatis, Konstantinos;
Ivanova, Natalia N.;
Kyrpides, Nikos C.

Publication type:

Article

The Complete Genome Sequence of Fibrobacter succinogenes S85 Reveals a Cellulolytic and Metabolic Specialist.

Published in:

PLoS ONE, 2011, v. 6, n. 4, p. 1, doi. 10.1371/journal.pone.0018814

By:

Suen, Garret;
Weimer, Paul J.;
Stevenson, David M.;
Aylward, Frank O.;
Boyum, Julie;
Deneke, Jan;
Drinkwater, Colleen;
Ivanova, Natalia N.;
Mikhailova, Natalia;
Chertkov, Olga;
Goodwin, Lynne A.;
Currie, Cameron R.;
Mead, David;
Brumm, Phillip J.

Publication type:

Article

The Complete Multipartite Genome Sequence of Cupriavidus necator JMP134, a Versatile Pollutant Degrade.

Published in:

PLoS ONE, 2010, v. 5, n. 3, p. 1, doi. 10.1371/journal.pone.0009729

By:

Lykidis, Athanasios;
Pérez-Pantoja, Danilo;
Ledger, Thomas;
Mavromatis, Kostantinos;
Anderson, Iain J.;
Ivanova, Natalia N.;
Hooper, Sean D.;
Lapidus, Alla;
Lucas, Susan;
González, Bernardo;
Kyrpides, Nikos C.

Publication type:

Article

Towards a balanced view of the bacterial tree of life.

Published in:

Microbiome, 2017, v. 5, p. 1, doi. 10.1186/s40168-017-0360-9

By:

Schulz, Frederik;
Eloe-Fadrosh, Emiley A.;
Bowers, Robert M.;
Jarett, Jessica;
Nielsen, Torben;
Ivanova, Natalia N.;
Kyrpides, Nikos C.;
Woyke, Tanja

Publication type:

Article

IMG/PR: a database of plasmids from genomes and metagenomes with rich annotations and metadata.

Published in:

Nucleic Acids Research, 2024, v. 52, n. D1, p. D164, doi. 10.1093/nar/gkad964

By:

Camargo, Antonio Pedro;
Call, Lee;
Roux, Simon;
Nayfach, Stephen;
Huntemann, Marcel;
Palaniappan, Krishnaveni;
Ratner, Anna;
Chu, Ken;
Mukherjeep, Supratim;
Reddy, T B K;
Chen, I-Min A;
Ivanova, Natalia N;
Eloe-Fadrosh, Emiley A;
Woyke, Tanja;
Baltrus, David A;
Castañeda-Barba, Salvador;
de la Cruz, Fernando;
Funnell, Barbara E;
Hall, James P J;
Mukhopadhyay, Aindrila

Publication type:

Article