Works by Daum, Chris

Results: 43

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

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

Permanent draft genome of Thiobacillus thioparus DSM 505T, an obligately chemolithoautotrophic member of the Betaproteobacteria.

Published in:

Standards in Genomic Sciences, 2017, v. 12, p. 1, doi. 10.1186/s40793-017-0229-3

By:

Hutt, Lee P.;
Huntemann, Marcel;
Clum, Alicia;
Pillay, Manoj;
Palaniappan, Krishnaveni;
Varghese, Neha;
Mikhailova, Natalia;
Stamatis, Dimitrios;
Reddy, Tatiparthi;
Daum, Chris;
Shapiro, Nicole;
Ivanova, Natalia;
Kyrpides, Nikos;
Woyke, Tanja;
Boden, Rich

Publication type:

Article

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

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

Genomic variation within the maize stiff‐stalk heterotic germplasm pool.

Published in:

Plant Genome, 2021, v. 14, n. 3, p. 1, doi. 10.1002/tpg2.20114

By:

Bornowski, Nolan;
Michel, Kathryn J.;
Hamilton, John P.;
Ou, Shujun;
Seetharam, Arun S.;
Jenkins, Jerry;
Grimwood, Jane;
Plott, Chris;
Shu, Shengqiang;
Talag, Jayson;
Kennedy, Megan;
Hundley, Hope;
Singan, Vasanth R.;
Barry, Kerrie;
Daum, Chris;
Yoshinaga, Yuko;
Schmutz, Jeremy;
Hirsch, Candice N.;
Hufford, Matthew B.;
de Leon, Natalia

Publication type:

Article

Mycoparasites, Gut Dwellers, and Saprotrophs: Phylogenomic Reconstructions and Comparative Analyses of Kickxellomycotina Fungi.

Published in:

Genome Biology & Evolution, 2023, v. 15, n. 1, p. 1, doi. 10.1093/gbe/evac185

By:

Reynolds, Nicole K;
Stajich, Jason E;
Benny, Gerald L;
Barry, Kerrie;
Mondo, Stephen;
LaButti, Kurt;
Lipzen, Anna;
Daum, Chris;
Grigoriev, Igor V;
Ho, Hsiao-Man;
Crous, Pedro W;
Spatafora, Joseph W;
Smith, Matthew E

Publication type:

Article

A large sequenced mutant library – valuable reverse genetic resource that covers 98% of sorghum genes.

Published in:

Plant Journal, 2024, v. 117, n. 5, p. 1543, doi. 10.1111/tpj.16582

By:

Jiao, Yinping;
Nigam, Deepti;
Barry, Kerrie;
Daum, Chris;
Yoshinaga, Yuko;
Lipzen, Anna;
Khan, Adil;
Parasa, Sai‐Praneeth;
Wei, Sharon;
Lu, Zhenyuan;
Tello‐Ruiz, Marcela K.;
Dhiman, Pallavi;
Burow, Gloria;
Hayes, Chad;
Chen, Junping;
Brandizzi, Federica;
Mortimer, Jenny;
Ware, Doreen;
Xin, Zhanguo

Publication type:

Article

Speciation Underpinned by Unexpected Molecular Diversity in the Mycorrhizal Fungal Genus Pisolithus.

Published in:

Molecular Biology & Evolution, 2023, v. 40, n. 3, p. 1, doi. 10.1093/molbev/msad045

By:

Plett, Jonathan M;
Miyauchi, Shingo;
Morin, Emmanuelle;
Plett, Krista;
Wong-Bajracharya, Johanna;
Pereira, Maira de Freitas;
Kuo, Alan;
Henrissat, Bernard;
Drula, Elodie;
Wojtalewicz, Dominika;
Riley, Robert;
Pangilinan, Jasmyn;
Andreopoulos, William;
LaButti, Kurt;
Daum, Chris;
Yoshinaga, Yuko;
Fauchery, Laure;
Ng, Vivian;
Lipzen, Anna;
Barry, Kerrie

Publication type:

Article

Comparative Genomics of Early-Diverging Mushroom-Forming Fungi Provides Insights into the Origins of Lignocellulose Decay Capabilities.

Published in:

Molecular Biology & Evolution, 2016, v. 33, n. 4, p. 959, doi. 10.1093/molbev/msv337

By:

Nagy, László G.;
Riley, Robert;
Tritt, Andrew;
Adam, Catherine;
Daum, Chris;
Floudas, Dimitrios;
Sun, Hui;
Yadav, Jagjit S.;
Pangilinan, Jasmyn;
Larsson, Karl-Henrik;
Matsuura, Kenji;
Barry, Kerrie;
Labutti, Kurt;
Kuo, Rita;
Ohm, Robin A.;
Bhattacharya, Sukanta S.;
Takashi Shirouzu;
Yuko Yoshinaga;
Martin, Francis M.;
Grigoriev, Igor V.

Publication type:

Article

Comparative genomics of Mollicutes-related endobacteria supports a late invasion into Mucoromycota fungi.

Published in:

Communications Biology, 2023, v. 6, n. 1, p. 1, doi. 10.1038/s42003-023-05299-8

By:

Longley, Reid;
Robinson, Aaron;
Liber, Julian A.;
Bryson, Abigail E.;
Morales, Demosthenes P.;
LaButti, Kurt;
Riley, Robert;
Mondo, Stephen J.;
Kuo, Alan;
Yoshinaga, Yuko;
Daum, Chris;
Barry, Kerrie;
Grigoriev, Igor V.;
Desirò, Alessandro;
Chain, Patrick S. G.;
Bonito, Gregory

Publication type:

Article

Genomic Analysis of Caldithrix abyssi, the Thermophilic Anaerobic Bacterium of the Novel Bacterial Phylum Calditrichaeota.

Published in:

Frontiers in Microbiology, 2017, v. 8, p. 1, doi. 10.3389/fmicb.2017.00195

By:

Kublanov, Ilya V.;
Sigalova, Olga M.;
Gavrilov, Sergey N.;
Lebedinsky, Alexander V.;
Rinke, Christian;
Kovaleva, Olga;
Chernyh, Nikolai A.;
Ivanova, Natalia;
Daum, Chris;
Reddy, T. B. K.;
Klenk, Hans-Peter;
Spring, Stefan;
Göker, Markus;
Reva, Oleg N.;
Miroshnichenko, Margarita L.;
Kyrpides, Nikos C.;
Woyke, Tanja;
Gelfand, Mikhail S.;
Bonch-Osmolovskaya, Elizaveta A.

Publication type:

Article

The obligate alkalophilic soda‐lake fungus Sodiomyces alkalinus has shifted to a protein diet.

Published in:

Molecular Ecology, 2018, v. 27, n. 23, p. 4808, doi. 10.1111/mec.14912

By:

Grum‐Grzhimaylo, Alexey A.;
Falkoski, Daniel L.;
Heuvel, Joost;
Valero‐Jiménez, Claudio A.;
Min, Byoungnam;
Choi, In‐Geol;
Lipzen, Anna;
Daum, Chris G.;
Aanen, Duur K.;
Tsang, Adrian;
Henrissat, Bernard;
Bilanenko, Elena N.;
Vries, Ronald P.;
Kan, Jan A. L.;
Grigoriev, Igor V.;
Debets, Alfons J. M.

Publication type:

Article

The genomic landscape of molecular responses to natural drought stress in Panicum hallii.

Published in:

Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-07669-x

By:

Lovell, John T.;
Jenkins, Jerry;
Lowry, David B.;
Mamidi, Sujan;
Sreedasyam, Avinash;
Weng, Xiaoyu;
Barry, Kerrie;
Bonnette, Jason;
Campitelli, Brandon;
Daum, Chris;
Gordon, Sean P.;
Gould, Billie A.;
Khasanova, Albina;
Lipzen, Anna;
MacQueen, Alice;
Palacio-Mejía, Juan Diego;
Plott, Christopher;
Shakirov, Eugene V.;
Shu, Shengqiang;
Yoshinaga, Yuko

Publication type:

Article

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

High quality permanent draft genome sequence of Chryseobacterium bovis DSM 19482T, 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

Draft genome sequence of Actinotignum schaalii DSM 15541T: Genetic insights into the lifestyle, cell fitness and virulence.

Published in:

PLoS ONE, 2017, v. 12, n. 12, p. 1, doi. 10.1371/journal.pone.0188914

By:

Yassin, Atteyet F.;
Langenberg, Stefan;
Huntemann, Marcel;
Clum, Alicia;
Pillay, Manoj;
Palaniappan, Krishnaveni;
Varghese, Neha;
Mikhailova, Natalia;
Mukherjee, Supratim;
Reddy, T. B. K.;
Daum, Chris;
Shapiro, Nicole;
Ivanova, Natalia;
Woyke, Tanja;
Kyrpides, Nikos C.

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

Microbiomes of Velloziaceae from phosphorus-impoverished soils of the campos rupestres, a biodiversity hotspot.

Published in:

Scientific Data, 2019, v. 6, n. 1, p. N.PAG, doi. 10.1038/s41597-019-0141-3

By:

Camargo, Antonio Pedro;
de Souza, Rafael Soares Correa;
de Britto Costa, Patrícia;
Gerhardt, Isabel Rodrigues;
Dante, Ricardo Augusto;
Teodoro, Grazielle Sales;
Abrahão, Anna;
Lambers, Hans;
Carazzolle, Marcelo Falsarella;
Huntemann, Marcel;
Clum, Alicia;
Foster, Brian;
Foster, Bryce;
Roux, Simon;
Palaniappan, Krishnaveni;
Varghese, Neha;
Mukherjee, Supratim;
Reddy, T. B. K.;
Daum, Chris;
Copeland, Alex

Publication type:

Article

Microbial metagenomes and metatranscriptomes during a coastal phytoplankton bloom.

Published in:

Scientific Data, 2019, v. 6, n. 1, p. N.PAG, doi. 10.1038/s41597-019-0132-4

By:

Nowinski, Brent;
Smith, Christa B.;
Thomas, Courtney M.;
Esson, Kaitlin;
Marin, Roman;
Preston, Christina M.;
Birch, James M.;
Scholin, Christopher A.;
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.

Publication type:

Article

Fungal ecological strategies reflected in gene transcription ‐ a case study of two litter decomposers.

Published in:

Environmental Microbiology, 2020, v. 22, n. 3, p. 1089, doi. 10.1111/1462-2920.14873

By:

Barbi, Florian;
Kohler, Annegret;
Barry, Kerrie;
Baskaran, Preetisri;
Daum, Chris;
Fauchery, Laure;
Ihrmark, Katarina;
Kuo, Alan;
LaButti, Kurt;
Lipzen, Anna;
Morin, Emmanuelle;
Grigoriev, Igor V.;
Henrissat, Bernard;
Lindahl, Björn D.;
Martin, Francis

Publication type:

Article

Multi‐omic analyses of exogenous nutrient bag decomposition by the black morel Morchella importuna reveal sustained carbon acquisition and transferring.

Published in:

Environmental Microbiology, 2019, v. 21, n. 10, p. 3909, doi. 10.1111/1462-2920.14741

By:

Tan, Hao;
Kohler, Annegret;
Miao, Renyun;
Liu, Tianhai;
Zhang, Qiang;
Zhang, Bo;
Jiang, Lin;
Wang, Yong;
Xie, Liyuan;
Tang, Jie;
Li, Xiaolin;
Liu, Lixu;
Grigoriev, Igor V.;
Daum, Chris;
LaButti, Kurt;
Lipzen, Anna;
Kuo, Alan;
Morin, Emmanuelle;
Drula, Elodie;
Henrissat, Bernard

Publication type:

Article

Evaluation of co-circulating pathogens and microbiome from COVID-19 infections.

Published in:

PLoS ONE, 2022, v. 17, n. 12, p. 1, doi. 10.1371/journal.pone.0278543

By:

Thissen, James B.;
Morrison, Michael D.;
Mulakken, Nisha;
Nelson, William C.;
Daum, Chris;
Messenger, Sharon;
Wadford, Debra A.;
Jaing, Crystal

Publication type:

Article

A new reference genome for Sorghum bicolor reveals high levels of sequence similarity between sweet and grain genotypes: implications for the genetics of sugar metabolism.

Published in:

BMC Genomics, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s12864-019-5734-x

By:

Cooper, Elizabeth A.;
Brenton, Zachary W.;
Flinn, Barry S.;
Jenkins, Jerry;
Shu, Shengqiang;
Flowers, Dave;
Luo, Feng;
Wang, Yunsheng;
Xia, Penny;
Barry, Kerrie;
Daum, Chris;
Lipzen, Anna;
Yoshinaga, Yuko;
Schmutz, Jeremy;
Saski, Christopher;
Vermerris, Wilfred;
Kresovich, Stephen

Publication type:

Article

Author Correction: Microbial Metagenomes Across a Complete Phytoplankton Bloom Cycle: High-Resolution Sampling Every 4 Hours Over 22 Days.

Published in:

2025

By:

Nunn, Brook L.;
Timmins-Schiffman, Emma;
Mudge, Miranda C.;
Plubell, Deanna L.;
Chebli, Gabriella;
Kubanek, Julia;
Riffle, Michael;
Noble, William S.;
Harvey, Elizabeth;
Nunn, Tasman A.;
Rynearson, Tatiana;
Huntemann, Marcel;
LaButti, Kurt;
Foster, Brian;
Foster, Bryce;
Roux, Simon;
Palaniappan, Krishnaveni;
Mukherjee, Supratim;
Reddy, T. B. K.;
Daum, Chris

Publication type:

Correction Notice

Microbial Metagenomes Across a Complete Phytoplankton Bloom Cycle: High-Resolution Sampling Every 4 Hours Over 22 Days.

Published in:

Scientific Data, 2024, v. 11, n. 1, p. 1, doi. 10.1038/s41597-024-04013-5

By:

Nunn, Brook L.;
Timmins-Schiffman, Emma;
Mudge, Miranda C.;
Plubell, Deanna L.;
Chebli, Gabriella;
Kubanek, Julia;
Riffle, Michael;
Noble, William S.;
Harvey, Elizabeth;
Nunn, Tasman A.;
Huntemann, Marcel;
Clum, Alicia;
Foster, Brian;
Foster, Bryce;
Roux, Simon;
Palaniappan, Krishnaveni;
Mukherjee, Supratim;
Reddy, T. B. K.;
Daum, Chris;
Copeland, Alex

Publication type:

Article

Coassembly and binning of a twenty-year metagenomic time-series from Lake Mendota.

Published in:

Scientific Data, 2024, v. 11, n. 1, p. 1, doi. 10.1038/s41597-024-03826-8

By:

Oliver, Tiffany;
Varghese, Neha;
Roux, Simon;
Schulz, Frederik;
Huntemann, Marcel;
Clum, Alicia;
Foster, Brian;
Foster, Bryce;
Riley, Robert;
LaButti, Kurt;
Egan, Robert;
Hajek, Patrick;
Mukherjee, Supratim;
Ovchinnikova, Galina;
Reddy, T. B. K.;
Calhoun, Sara;
Hayes, Richard D.;
Rohwer, Robin R.;
Zhou, Zhichao;
Daum, Chris

Publication type:

Article

Overexpression of REDUCED WALL ACETYLATION C increases xylan acetylation and biomass recalcitrance in Populus.

Published in:

Plant Physiology, 2024, v. 194, n. 1, p. 243, doi. 10.1093/plphys/kiad377

By:

Zhang, Jin;
Wang, Xiaqin;
Wang, Hsin-Tzu;
Qiao, Zhenzhen;
Yao, Tao;
Xie, Meng;
Urbanowicz, Breeanna R;
Zeng, Wei;
Jawdy, Sara S;
Gunter, Lee E;
Yang, Xiaohan;
Czarnecki, Olaf;
Regan, Sharon;
Seguin, Armand;
Rottmann, William;
Winkeler, Kimberly A;
Sykes, Robert;
Lipzen, Anna;
Daum, Chris;
Barry, Kerrie

Publication type:

Article

Variation and Inheritance of Small RNAs in Maize Inbreds and F1 Hybrids.

Published in:

Plant Physiology, 2020, v. 182, n. 1, p. 318, doi. 10.1104/pp.19.00817

By:

Crisp, Peter A.;
Hammond, Reza;
Peng Zhou;
Vaillancourt, Brieanne;
Lipzen, Anna;
Daum, Chris;
Barry, Kerrie;
de Leon, Natalia;
Buell, C. Robin;
Kaeppler, Shawn M.;
Meyers, Blake C.;
Hirsch, Candice N.;
Springer, Nathan M.

Publication type:

Article

Metagenome-assembled genomes of phytoplankton microbiomes from the Arctic and Atlantic Oceans.

Published in:

Microbiome, 2022, v. 10, n. 1, p. 1, doi. 10.1186/s40168-022-01254-7

By:

Duncan, Anthony;
Barry, Kerrie;
Daum, Chris;
Eloe-Fadrosh, Emiley;
Roux, Simon;
Schmidt, Katrin;
Tringe, Susannah G.;
Valentin, Klaus U.;
Varghese, Neha;
Salamov, Asaf;
Grigoriev, Igor V.;
Leggett, Richard M.;
Moulton, Vincent;
Mock, Thomas

Publication type:

Article

A comparative genomics study of 23 Aspergillus species from section Flavi.

Published in:

Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-019-14051-y

By:

Kjærbølling, Inge;
Vesth, Tammi;
Frisvad, Jens C.;
Nybo, Jane L.;
Theobald, Sebastian;
Kildgaard, Sara;
Petersen, Thomas Isbrandt;
Kuo, Alan;
Sato, Atsushi;
Lyhne, Ellen K.;
Kogle, Martin E.;
Wiebenga, Ad;
Kun, Roland S.;
Lubbers, Ronnie J. M.;
Mäkelä, Miia R.;
Barry, Kerrie;
Chovatia, Mansi;
Clum, Alicia;
Daum, Chris;
Haridas, Sajeet

Publication type:

Article

Multiple Mutations Associated with Emergent Variants Can Be Detected as Low-Frequency Mutations in Early SARS-CoV-2 Pandemic Clinical Samples.

Published in:

Viruses (1999-4915), 2022, v. 14, n. 12, p. 2775, doi. 10.3390/v14122775

By:

Kimbrel, Jeffrey;
Moon, Joseph;
Avila-Herrera, Aram;
Martí, Jose Manuel;
Thissen, James;
Mulakken, Nisha;
Sandholtz, Sarah H.;
Ferrell, Tyshawn;
Daum, Chris;
Hall, Sara;
Segelke, Brent;
Arrildt, Kathryn T.;
Messenger, Sharon;
Wadford, Debra A.;
Jaing, Crystal;
Allen, Jonathan E.;
Borucki, Monica K.

Publication type:

Article

The Epigenomic Landscape of Prokaryotes.

Published in:

PLoS Genetics, 2016, v. 12, n. 2, p. 1, doi. 10.1371/journal.pgen.1005854

By:

Blow, Matthew J.;
Clark, Tyson A.;
Daum, Chris G.;
Deutschbauer, Adam M.;
Fomenkov, Alexey;
Fries, Roxanne;
Froula, Jeff;
Kang, Dongwan D.;
Malmstrom, Rex R.;
Morgan, Richard D.;
Posfai, Janos;
Singh, Kanwar;
Visel, Axel;
Wetmore, Kelly;
Zhao, Zhiying;
Rubin, Edward M.;
Korlach, Jonas;
Pennacchio, Len A.;
Roberts, Richard J.

Publication type:

Article

The Chlamydomonas Genome Project, version 6: Reference assemblies for mating-type plus and minus strains reveal extensive structural mutation in the laboratory.

Published in:

Plant Cell, 2023, v. 35, n. 2, p. 644, doi. 10.1093/plcell/koac347

By:

Craig, Rory J;
Gallaher, Sean D;
Shu, Shengqiang;
Salomé, Patrice A;
Jenkins, Jerry W;
Blaby-Haas, Crysten E;
Purvine, Samuel O;
O'Donnell, Samuel;
Barry, Kerrie;
Grimwood, Jane;
Strenkert, Daniela;
Kropat, Janette;
Daum, Chris;
Yoshinaga, Yuko;
Goodstein, David M;
Vallon, Olivier;
Schmutz, Jeremy;
Merchant, Sabeeha S

Publication type:

Article

Genetic mapping and prediction of flowering time and plant height in a maize Stiff Stalk MAGIC population.

Published in:

Genetics, 2022, v. 221, n. 2, p. 1, doi. 10.1093/genetics/iyac063

By:

Michel, Kathryn J.;
Lima, Dayane C.;
Hundley, Hope;
Singan, Vasanth;
Yuko Yoshinaga;
Daum, Chris;
Barry, Kerrie;
Broman, Karl W.;
Buell, C. Robin;
de Leon, Natalia;
Kaeppler, Shawn M.

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Draft genome sequencing and assembly of Favolaschia claudopus CIRM-BRFM 2984 isolated from oak limbs.

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Journal of Genomics, 2024, v. 12, p. 44, doi. 10.7150/jgen.92255

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Navarro, David;
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Chaduli, Delphine;
Cazenave, Robert;
Ahrendt, Steven;
Jie Wang;
Lipzen, Anna;
Daum, Chris;
Barry, Kerrie;
Grigoriev, Igor V.;
Favel, Anne;
Rosso, Marie-Noëlle;
Martin, Francis

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Metatranscriptomics sheds light on the links between the functional traits of fungal guilds and ecological processes in forest soil ecosystems.

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New Phytologist, 2024, v. 242, n. 4, p. 1676, doi. 10.1111/nph.19471

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Auer, Lucas;
Buée, Marc;
Fauchery, Laure;
Lombard, Vincent;
Barry, Kerry W.;
Clum, Alicia;
Copeland, Alex;
Daum, Chris;
Foster, Brian;
LaButti, Kurt;
Singan, Vasanth;
Yoshinaga, Yuko;
Martineau, Christine;
Alfaro, Manuel;
Castillo, Federico J.;
Imbert, J. Bosco;
Ramírez, Lucia;
Castanera, Raúl;
Pisabarro, Antonio G.;
Finlay, Roger

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Genome-wide associations with flowering time in switchgrass using exome-capture sequencing data.

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New Phytologist, 2017, v. 213, n. 1, p. 154, doi. 10.1111/nph.14101

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Grabowski, Paul P.;
Evans, Joseph;
Daum, Chris;
Deshpande, Shweta;
Barry, Kerrie W.;
Kennedy, Megan;
Ramstein, Guillaume;
Kaeppler, Shawn M.;
Buell, C. Robin;
Jiang, Yiwei;
Casler, Michael D.

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Single‐parent expression drives dynamic gene expression complementation in maize hybrids.

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Plant Journal, 2021, v. 105, n. 1, p. 93, doi. 10.1111/tpj.15042

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Li, Zhi;
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Della Coletta, Rafael;
Zhang, Tifu;
Brohammer, Alex B.;
O'Connor, Christine;
Vaillancourt, Brieanne;
Lipzen, Anna;
Daum, Chris;
Barry, Kerrie;
de Leon, Natalia;
Hirsch, Cory D.;
Buell, C. Robin;
Kaeppler, Shawn M.;
Springer, Nathan M.;
Hirsch, Candice N.

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Diversity and population structure of northern switchgrass as revealed through exome capture sequencing.

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Plant Journal, 2015, v. 84, n. 4, p. 800, doi. 10.1111/tpj.13041

By:

Evans, Joseph;
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Barry, Kerrie;
Daum, Chris;
Jenkins, Jerry;
Kunde‐Ramamoorthy, Govindarajan;
Nandety, Aruna;
Ngan, Chew Yee;
Vaillancourt, Brieanne;
Wei, Chia‐Lin;
Schmutz, Jeremy;
Kaeppler, Shawn M.;
Casler, Michael D.;
Buell, Carol Robin

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Long-read metagenomics of soil communities reveals phylum-specific secondary metabolite dynamics.

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Communications Biology, 2021, v. 4, n. 1, p. 1, doi. 10.1038/s42003-021-02809-4

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Van Goethem, Marc W.;
Osborn, Andrew R.;
Bowen, Benjamin P.;
Andeer, Peter F.;
Swenson, Tami L.;
Clum, Alicia;
Riley, Robert;
He, Guifen;
Koriabine, Maxim;
Sandor, Laura;
Yan, Mi;
Daum, Chris G.;
Yoshinaga, Yuko;
Makhalanyane, Thulani P.;
Garcia-Pichel, Ferran;
Visel, Axel;
Pennacchio, Len A.;
O'Malley, Ronan C.;
Northen, Trent R.

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High‐throughput identification of novel heat tolerance genes via genome‐wide pooled mutant screens in the model green alga Chlamydomonas reinhardtii.

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Plant, Cell & Environment, 2023, v. 46, n. 3, p. 865, doi. 10.1111/pce.14507

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Mattoon, Erin M.;
McHargue, William E.;
Bailey, Catherine E.;
Zhang, Ningning;
Chen, Chen;
Eckhardt, James;
Daum, Chris G.;
Zane, Matt;
Pennacchio, Christa;
Schmutz, Jeremy;
O'Malley, Ronan C.;
Cheng, Jianlin;
Zhang, Ru

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The biogeographic differentiation of algal microbiomes in the upper ocean from pole to pole.

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Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-25646-9

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Martin, Kara;
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Toseland, Andrew;
Boulton, Chris A.;
Barry, Kerrie;
Beszteri, Bánk;
Brussaard, Corina P. D.;
Clum, Alicia;
Daum, Chris G.;
Eloe-Fadrosh, Emiley;
Fong, Allison;
Foster, Brian;
Foster, Bryce;
Ginzburg, Michael;
Huntemann, Marcel;
Ivanova, Natalia N.;
Kyrpides, Nikos C.;
Lindquist, Erika;
Mukherjee, Supratim;
Palaniappan, Krishnaveni

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