Impact of library preparation protocols and template quantity on the metagenomic reconstruction of a mock microbial community

by Bowers, Robert M., Clum, Alicia, Tice, Hope, Lim, Joanne, Singh, Kanwar, Ciobanu, Doina, Ngan, Chew Yee, Cheng, Jan-Fang, Tringe, Susannah G., Woyke, Tanja
Published 2015

Erratum to: Permanent draft genome of Thermithiobacillus tepidarius DSM 3134T, a moderately thermophilic, obligately chemolithoautotrophic member of the Acidithiobacillia

by Boden, Rich, Hutt, Lee P., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, Tatiparthi, Ngan, Chew Yee, Daum, Chris, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Woyke, Tanja, Kyrpides, Nikos
Published 2016

Permanent draft genome of Thermithiobaclillus tepidarius DSM 3134T, a moderately thermophilic, obligately chemolithoautotrophic member of the Acidithiobacillia

by Boden, Rich, Hutt, Lee P., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, Tatiparthi, Ngan, Chew Yee, Daum, Chris, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Woyke, Tanja, Kyrpides, Nikos
Published 2016

Integrative epigenomic analysis reveals unique epigenetic signatures involved in unipotency of mouse female germline stem cells

by Zhang, Xiao-Li, Wu, Jun, Wang, Jian, Shen, Tingting, Li, Hua, Lu, Jun, Gu, Yunzhao, Kang, Yani, Wong, Chee-Hong, Ngan, Chew Yee, Shao, Zhifeng, Wu, Ji, Zhao, Xiaodong
Published 2016

Genome sequencing of four Aureobasidium pullulans varieties: biotechnological potential, stress tolerance, and description of new species

by Gostinčar, Cene, Ohm, Robin A, Kogej, Tina, Sonjak, Silva, Turk, Martina, Zajc, Janja, Zalar, Polona, Grube, Martin, Sun, Hui, Han, James, Sharma, Aditi, Chiniquy, Jennifer, Ngan, Chew Yee, Lipzen, Anna, Barry, Kerrie, Grigoriev, Igor V, Gunde-Cimerman, Nina
Published 2014

Expression of Aspergillus niger CAZymes is determined by compositional changes in wheat straw generated by hydrothermal or ionic liquid pretreatments

by Daly, Paul, van Munster, Jolanda M., Blythe, Martin J., Ibbett, Roger, Kokolski, Matthew, Gaddipati, Sanyasi, Lindquist, Erika, Singan, Vasanth R., Barry, Kerrie W., Lipzen, Anna, Ngan, Chew Yee, Petzold, Christopher J., Chan, Leanne Jade G., Pullan, Steven T., Delmas, Stéphane, Waldron, Paul R., Grigoriev, Igor V., Tucker, Gregory A., Simmons, Blake A., Archer, David B.
Published 2017

CTCF-Mediated Functional Chromatin Interactome in Pluripotent Cells

by Handoko, Lusy, Xu, Han, Li, Guoliang, Ngan, Chew Yee, Chew, Elaine, Schnapp, Marie, Lee, Charlie Wah Heng, Ye, Chaopeng, Ping, Joanne Lim Hui, Mulawadi, Fabianus, Wong, Eleanor, Sheng, Jianpeng, Zhang, Yubo, Poh, Thompson, Chan, Chee Seng, Kunarso, Galih, Shahab, Atif, Bourque, Guillaume, Cacheux-Rataboul, Valere, Sung, Wing-Kin, Ruan, Yijun, Wei, Chia-Lin
Published 2011

High-Quality Draft Genome Sequence of Thermocrinis jamiesonii GBS1T Isolated from Great Boiling Spring, Nevada

by Ganji, Rakesh, Murugapiran, Senthil K., Ong, John C., Manoharan, Namritha, Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Duffy, Kecia, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Woyke, Tanja, Dodsworth, Jeremy A., Hedlund, Brian P.
Published 2016

Application of Long Sequence Reads To Improve Genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7

by Utturkar, Sagar M., Bayer, Edward A., Borovok, Ilya, Lamed, Raphael, Hurt, Richard A., Land, Miriam L., Klingeman, Dawn M., Elias, Dwayne, Zhou, Jizhong, Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Woyke, Tanja, Brown, Steven D.
Published 2016

Genome Sequence of Arenibacter algicola Strain TG409, a Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton

by Gutierrez, Tony, Whitman, William B., Huntemann, Marcel, Copeland, Alex, Chen, Amy, Kyrpides, Nikos, Markowitz, Victor, Pillay, Manoj, Ivanova, Natalia, Mikhailova, Natalia, Ovchinnikova, Galina, Andersen, Evan, Pati, Amrita, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Chovatia, Mansi, Daum, Chris, Shapiro, Nicole, Cantor, Michael N., Woyke, Tanja
Published 2016

Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil

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, Palaniappan, Krishna, Ivanova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris
Published 2016

Genome Sequence of Marinobacter sp. Strain MCTG268 Isolated from the Cosmopolitan Marine Diatom Skeletonema costatum

by Gutierrez, Tony, Whitman, William B., Huntemann, Marcel, Copeland, Alex, Chen, Amy, Kyrpides, Nikos, Markowitz, Victor, Pillay, Manoj, Ivanova, Natalia, Mikhailova, Natalia, Ovchinnikova, Galina, Andersen, Evan, Pati, Amrita, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Chovatia, Mansi, Daum, Chris, Shapiro, Nicole, Cantor, Michael N., Woyke, Tanja
Published 2016

High-Quality Draft Genomes from Thermus caliditerrae YIM 77777 and T. tengchongensis YIM 77401, Isolates from Tengchong, China

by Mefferd, Chrisabelle C., Zhou, En-Min, Yu, Tian-Tian, Ming, Hong, Murugapiran, Senthil K., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Duffy, Kecia, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Williams, Amanda J., Woyke, Tanja, Li, Wen-Jun, Hedlund, Brian P.
Published 2016

Near-Complete Genome Sequence of Thalassospira sp. Strain KO164 Isolated from a Lignin-Enriched Marine Sediment Microcosm

by Woo, Hannah L., O’Dell, Kaela B., Utturkar, Sagar, McBride, Kathryn R., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Woyke, Tanja, Brown, Steven D., Hazen, Terry C.
Published 2016

High-Quality Draft Genome Sequence of Kallotenue papyrolyticum JKG1T Reveals Broad Heterotrophic Capacity Focused on Carbohydrate and Amino Acid Metabolism

by Hedlund, Brian P., Murugapiran, Senthil K., Huntemann, Marcel, Clum, Alicia, Pillay, Manoj, Palaniappan, Krishnaveni, Varghese, Neha, Mikhailova, Natalia, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Daum, Chris, Duffy, Kecia, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, Williams, Amanda J., Cole, Jessica K., Dodsworth, Jeremy A., Woyke, Tanja
Published 2015

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

by Zhou, En-Min, Murugapiran, Senthil K., Mefferd, Chrisabelle C., 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. B. K., Ngan, Chew Yee, Daum, Chris, Shapiro, Nicole, Markowitz, Victor, Ivanova, Natalia, Spunde, Alexander, Kyrpides, Nikos, Woyke, Tanja, Li, Wen-Jun, Hedlund, Brian P.
Published 2016

Genome Sequence of Porticoccus hydrocarbonoclasticus Strain MCTG13d, an Obligate Polycyclic Aromatic Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton

by Gutierrez, Tony, Whitman, William B., Huntemann, Marcel, Copeland, Alex, Chen, Amy, Kyrpides, Nikos, Markowitz, Victor, Pillay, Manoj, Ivanova, Natalia, Mikhailova, Natalia, Ovchinnikova, Galina, Andersen, Evan, Pati, Amrita, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Chovatia, Mansi, Daum, Chris, Shapiro, Nicole, Cantor, Michael N., Woyke, Tanja
Published 2015

Genome Sequence of Halomonas sp. Strain MCTG39a, a Hydrocarbon-Degrading and Exopolymeric Substance-Producing Bacterium

by Gutierrez, Tony, Whitman, William B., Huntemann, Marcel, Copeland, Alex, Chen, Amy, Kyrpides, Nikos, Markowitz, Victor, Pillay, Manoj, Ivanova, Natalia, Mikhailova, Natalia, Ovchinnikova, Galina, Andersen, Evan, Pati, Amrita, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Chovatia, Mansi, Daum, Chris, Shapiro, Nicole, Cantor, Michael N., Woyke, Tanja
Published 2015

Strand-Specific RNA-Seq Analyses of Fruiting Body Development in Coprinopsis cinerea

by Muraguchi, Hajime, Umezawa, Kiwamu, Niikura, Mai, Yoshida, Makoto, Kozaki, Toshinori, Ishii, Kazuo, Sakai, Kiyota, Shimizu, Motoyuki, Nakahori, Kiyoshi, Sakamoto, Yuichi, Choi, Cindy, Ngan, Chew Yee, Lindquist, Eika, Lipzen, Anna, Tritt, Andrew, Haridas, Sajeet, Barry, Kerrie, Grigoriev, Igor V., Pukkila, Patricia J.
Published 2015

Genome Sequence of Polycyclovorans algicola Strain TG408, an Obligate Polycyclic Aromatic Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton

by Gutierrez, Tony, Thompson, Haydn F., Angelova, Angelina, Whitman, William B., Huntemann, Marcel, Copeland, Alex, Chen, Amy, Kyrpides, Nikos, Markowitz, Victor, Palaniappan, Krishnaveni, Ivanova, Natalia, Mikhailova, Natalia, Ovchinnikova, Galina, Andersen, Evan, Pati, Amrita, Stamatis, Dimitrios, Reddy, T. B. K., Ngan, Chew Yee, Chovatia, Mansi, Daum, Chris, Shapiro, Nicole, Cantor, Michael N., Woyke, Tanja
Published 2015