Works by Shapiro, Nicole


Results: 41
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    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
    3

    High-quality-draft genome sequence of the fermenting bacterium Anaerobium acetethylicum type strain GluBS11T (DSM 29698).

    Published in:
    Standards in Genomic Sciences, 2017, v. 12, p. 1, doi. 10.1186/s40793-017-0236-4
    By:
    • Patil, Yogita;
    • Müller, Nicolai;
    • Schink, Bernhard;
    • Whitman, William B.;
    • Huntemann, Marcel;
    • Clum, Alicia;
    • Pillay, Manoj;
    • Palaniappan, Krishnaveni;
    • Varghese, Neha;
    • Mikhailova, Natalia;
    • Stamatis, Dimitrios;
    • Reddy, T. B. K.;
    • Daum, Chris;
    • Shapiro, Nicole;
    • Ivanova, Natalia;
    • Kyrpides, Nikos;
    • Woyke, Tanja;
    • Junghare, Madan
    Publication type:
    Article
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    Permanent draft genome of Thermithiobacillus tepidarius DSM 3134T, a moderately thermophilic, obligately chemolithoautotrophic member of the Acidithiobacillia.

    Published in:
    Standards in Genomic Sciences, 2016, p. 1, doi. 10.1186/s40793-016-0188-0
    By:
    • Boden, Rich;
    • Hutt, Lee P.;
    • Huntemann, Marcel;
    • Clum, Alicia;
    • Pillay, Manoj;
    • Palaniappan, Krishnaveni;
    • Varghese, Neha;
    • Mikhailova, Natalia;
    • Stamatis, Dimitrios;
    • Reddy, Tatiparthi;
    • Chew Yee Ngan;
    • Daum, Chris;
    • Shapiro, Nicole;
    • Markowitz, Victor;
    • Ivanova, Natalia;
    • Woyke, Tanja;
    • Kyrpides, Nikos
    Publication type:
    Article
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    Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil.

    Published in:
    Standards in Genomic Sciences, 2016, v. 11, p. 1, doi. 10.1186/s40793-016-0168-4
    By:
    • Rice, Marlen C.;
    • Norton, Jeanette M.;
    • Valois, Frederica;
    • Bollmann, Annette;
    • Bottomley, Peter J.;
    • Klotz, Martin G.;
    • Laanbroek, Hendrikus J.;
    • Suwa, Yuichi;
    • Stein, Lisa Y.;
    • Sayavedra-Soto, Luis;
    • Woyke, Tanja;
    • Shapiro, Nicole;
    • Goodwin, Lynne A.;
    • Huntemann, Marcel;
    • Clum, Alicia;
    • Pillay, Manoj;
    • Kyrpides, Nikos;
    • Varghese, Neha;
    • Mikhailova, Natalia;
    • Markowitz, Victor
    Publication type:
    Article
    9

    High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409 with an incomplete denitrification pathway.

    Published in:
    Standards in Genomic Sciences, 2016, v. 11, n. 1, p. 1, doi. 10.1186/s40793-016-0140-3
    By:
    • Zhou, En-Min;
    • Murugapiran, Senthil;
    • Mefferd, Chrisabelle;
    • Liu, Lan;
    • Xian, Wen-Dong;
    • Yin, Yi-Rui;
    • Ming, Hong;
    • Yu, Tian-Tian;
    • Huntemann, Marcel;
    • Clum, Alicia;
    • Pillay, Manoj;
    • Palaniappan, Krishnaveni;
    • Varghese, Neha;
    • Mikhailova, Natalia;
    • Stamatis, Dimitrios;
    • Reddy, T.;
    • Ngan, Chew;
    • Daum, Chris;
    • Shapiro, Nicole;
    • Markowitz, Victor
    Publication type:
    Article
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    High quality draft genome sequence and analysis of Pontibacter roseus type strain SRC-1<sup>T</sup> (DSM 17521<sup>T</sup>) isolated from muddy waters of a drainage system in Chandigarh, India.

    Published in:
    Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/1944-3277-10-8
    By:
    • Mukherjee, Supratim;
    • Lapidus, Alla;
    • Shapiro, Nicole;
    • Jan-Fang Cheng;
    • Han, James;
    • Reddy, T. B. K.;
    • Huntemann, Marcel;
    • Ivanova, Natalia;
    • Mikhailova, Natalia;
    • Amy Chen;
    • Palaniappan, Krishna;
    • Spring, Stefan;
    • Göker, Markus;
    • Markowitz, Victor;
    • Woyke, Tanja;
    • Tindall, Brian J.;
    • Klenk, Hans-Peter;
    • Kyrpides, Nikos C.;
    • Pati, Amrita
    Publication type:
    Article
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    Phylogenomics and genetic analysis of solvent-producing Clostridium species.

    Published in:
    Scientific Data, 2024, v. 11, n. 1, p. 1, doi. 10.1038/s41597-024-03210-6
    By:
    • Jensen, Rasmus O.;
    • Schulz, Frederik;
    • Roux, Simon;
    • Klingeman, Dawn M.;
    • Mitchell, Wayne P.;
    • Udwary, Daniel;
    • Moraïs, Sarah;
    • Reynoso, Vinicio;
    • Winkler, James;
    • Nagaraju, Shilpa;
    • De Tissera, Sashini;
    • Shapiro, Nicole;
    • Ivanova, Natalia;
    • Reddy, T. B. K.;
    • Mizrahi, Itzhak;
    • Utturkar, Sagar M.;
    • Bayer, Edward A.;
    • Woyke, Tanja;
    • Mouncey, Nigel J.;
    • Jewett, Michael C.
    Publication type:
    Article
    17

    Genome-guided isolation of the hyperthermophilic aerobe Fervidibacter sacchari reveals conserved polysaccharide metabolism in the Armatimonadota.

    Published in:
    Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-53784-3
    By:
    • Nou, Nancy O.;
    • Covington, Jonathan K.;
    • Lai, Dengxun;
    • Mayali, Xavier;
    • Seymour, Cale O.;
    • Johnston, Juliet;
    • Jiao, Jian-Yu;
    • Buessecker, Steffen;
    • Mosier, Damon;
    • Muok, Alise R.;
    • Torosian, Nicole;
    • Cook, Allison M.;
    • Briegel, Ariane;
    • Woyke, Tanja;
    • Eloe-Fadrosh, Emiley;
    • Shapiro, Nicole;
    • Bryan, Scott G.;
    • Sleezer, Savannah;
    • Dimapilis, Joshua;
    • Gonzalez, Cristina
    Publication type:
    Article
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    Draft genome of Paraburkholderia caballeronis TNe-841<sup>T</sup>, a free-living, nitrogen-fixing, tomato plant-associated bacterium.

    Published in:
    Standards in Genomic Sciences, 2017, v. 12, p. 1, doi. 10.1186/s40793-017-0294-7
    By:
    • Rojas-Rojas, Fernando Uriel;
    • Tapia-García, Erika Yanet;
    • Maymon, Maskit;
    • Humm, Ethan;
    • Huntemann, Marcel;
    • Clum, Alicia;
    • Pillay, Manoj;
    • Palaniappan, Krishnaveni;
    • Varghese, Neha;
    • Mikhailova, Natalia;
    • Stamatis, Dimitrios;
    • Reddy, T. B. K.;
    • Markowitz, Victor;
    • Ivanova, Natalia;
    • Kyrpides, Nikos;
    • Woyke, Tanja;
    • Shapiro, Nicole;
    • Hirsch, Ann M.;
    • Estrada-de los Santos, Paulina
    Publication type:
    Article
    22
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    High-quality genome sequence of the radioresistant bacterium Deinococcus ficus KS 0460.

    Published in:
    Standards in Genomic Sciences, 2017, v. 12, p. 1, doi. 10.1186/s40793-017-0258-y
    By:
    • Matrosova, Vera Y.;
    • Gaidamakova, Elena K.;
    • Makarova, Kira S.;
    • Grichenko, Olga;
    • Klimenkova, Polina;
    • Volpe, Robert P.;
    • Tkavc, Rok;
    • Ertem, Gözen;
    • Conze, Isabel H.;
    • Brambilla, Evelyne;
    • Huntemann, Marcel;
    • Clum, Alicia;
    • Pillay, Manoj;
    • Palaniappan, Krishnaveni;
    • Varghese, Neha;
    • Mikhailova, Natalia;
    • Stamatis, Dimitrios;
    • Reddy, T. B. K.;
    • Daum, Chris;
    • Shapiro, Nicole
    Publication type:
    Article
    24

    High quality permanent draft genome sequence of Chryseobacterium bovis DSM 19482<sup>T</sup>, isolated from raw cow milk.

    Published in:
    Standards in Genomic Sciences, 2017, v. 12, p. 1, doi. 10.1186/s40793-017-0242-6
    By:
    • Laviad-Shitrit, Sivan;
    • Göker, Markus;
    • Huntemann, Marcel;
    • Clum, Alicia;
    • Pillay, Manoj;
    • Palaniappan, Krishnaveni;
    • Varghese, Neha;
    • Mikhailova, Natalia;
    • Stamatis, Dimitrios;
    • Reddy, T. B. K.;
    • Daum, Chris;
    • Shapiro, Nicole;
    • Markowitz, Victor;
    • Ivanova, Natalia;
    • Woyke, Tanja;
    • Klenk, Hans-Peter;
    • Kyrpides, Nikos C.;
    • Halpern, Malka
    Publication type:
    Article
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    Genome‐based evolutionary history of Pseudomonas spp.

    Published in:
    Environmental Microbiology, 2018, v. 20, n. 6, p. 2142, doi. 10.1111/1462-2920.14130
    By:
    • Hesse, Cedar;
    • Schulz, Frederik;
    • Bull, Carolee T.;
    • Shaffer, Brenda T.;
    • Yan, Qing;
    • Shapiro, Nicole;
    • Hassan, Karl A.;
    • Varghese, Neha;
    • Elbourne, Liam D. H.;
    • Paulsen, Ian T.;
    • Kyrpides, Nikos;
    • Woyke, Tanja;
    • Loper, Joyce E.
    Publication type:
    Article
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    Influence of the polar light cycle on seasonal dynamics of an Antarctic lake microbial community.

    Published in:
    Microbiome, 2020, v. 8, n. 1, p. 1, doi. 10.1186/s40168-020-00889-8
    By:
    • Panwar, Pratibha;
    • Allen, Michelle A.;
    • Williams, Timothy J.;
    • Hancock, Alyce M.;
    • Brazendale, Sarah;
    • Bevington, James;
    • Roux, Simon;
    • Páez-Espino, David;
    • Nayfach, Stephen;
    • Berg, Maureen;
    • Schulz, Frederik;
    • Chen, I-Min A.;
    • Huntemann, Marcel;
    • Shapiro, Nicole;
    • Kyrpides, Nikos C.;
    • Woyke, Tanja;
    • Eloe-Fadrosh, Emiley A.;
    • Cavicchioli, Ricardo
    Publication type:
    Article
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    Whole Genome Analyses Suggests that Burkholderia sensu lato Contains Two Additional Novel Genera (Mycetohabitans gen. nov., and Trinickia gen. nov.): Implications for the Evolution of Diazotrophy and Nodulation in the Burkholderiaceae.

    Published in:
    Genes, 2018, v. 9, n. 8, p. 389, doi. 10.3390/genes9080389
    By:
    • Estrada-de los Santos, Paulina;
    • Chávez-Ramírez, Belén;
    • Shapiro, Nicole;
    • Poole, Philip S.;
    • Palmer, Marike;
    • Beukes, Chrizelle;
    • Steenkamp, Emma T.;
    • Venter, Stephanus N.;
    • Briscoe, Leah;
    • Khan, Noor;
    • Humm, Ethan;
    • Arrabit, Monique;
    • Hirsch, Ann M.;
    • Maluk, Marta;
    • Lafos, Marcel;
    • James, Euan K.;
    • Crook, Matthew;
    • Gross, Eduardo;
    • Simon, Marcelo F.;
    • dos Reis Junior, Fábio Bueno
    Publication type:
    Article
    38

    Draft Genome of Burkholderia cenocepacia TAtl-371, a Strain from the Burkholderia cepacia Complex Retains Antagonism in Different Carbon and Nitrogen Sources.

    Published in:
    Current Microbiology, 2019, v. 76, n. 5, p. 566, doi. 10.1007/s00284-019-01657-0
    By:
    • Rojas-Rojas, Fernando Uriel;
    • Sánchez-López, David;
    • Tapia-García, Erika Yanet;
    • Arroyo-Herrera, Ivan;
    • Maymon, Maskit;
    • Humm, Ethan;
    • Huntemann, Marcel;
    • Clum, Alicia;
    • Pillay, Manoj;
    • Palaniappan, Krishnaveni;
    • Varghese, Neha;
    • Mikhailova, Natalia;
    • Stamatis, Dimitrios;
    • Reddy, T. B. K.;
    • Ivanova, Natalia;
    • Kyrpides, Nikos;
    • Woyke, Tanja;
    • Shapiro, Nicole;
    • Hirsch, Ann M.;
    • Ibarra, J. Antonio
    Publication type:
    Article
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    Feathermoss and epiphytic Nostoc cooperate differently: expanding the spectrum of plant-cyanobacteria symbiosis.

    Published in:
    ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2017, v. 11, n. 12, p. 2821, doi. 10.1038/ismej.2017.134
    By:
    • Warshan, Denis;
    • Espinoza, Josh L;
    • Stuart, Rhona K;
    • Richter, R Alexander;
    • Kim, Sea-Yong;
    • Shapiro, Nicole;
    • Woyke, Tanja;
    • C Kyrpides, Nikos;
    • Barry, Kerrie;
    • Singan, Vasanth;
    • Lindquist, Erika;
    • Ansong, Charles;
    • Purvine, Samuel O;
    • M Brewer, Heather;
    • Weyman, Philip D;
    • Dupont, Christopher L;
    • Rasmussen, Ulla
    Publication type:
    Article