HiMMe: using genetic patterns as a proxy for genome assembly reliability assessment

by Jordi Abante, Noushin Ghaffari, Charles D. Johnson, Aniruddha Datta
Published 2017-09-01

Comparative transcriptomic analysis of germinating rice seedlings to individual and combined anaerobic and cold stress

by Ranjita Thapa, Rodante E. Tabien, Charles D. Johnson, Endang M. Septiningsih
Published 2023-04-01

Genome-wide identification of soybean microRNA responsive to soybean cyst nematodes infection by deep sequencing

by Bin Tian, Shichen Wang, Timothy C. Todd, Charles D. Johnson, Guiliang Tang, Harold N. Trick
Published 2017-08-01

Horn fly transcriptome data of ten populations from the southern United States with varying degrees and molecular mechanisms of pesticide resistance

by Kylie G. Bendele, Felix D. Guerrero, Kimberly H. Lohmeyer, Lane D. Foil, Richard P. Metz, Charles D. Johnson
Published 2023-06-01

Transcriptome Analysis of Developing Grains from Wheat Cultivars TAM 111 and TAM 112 Reveal Cultivar-Specific Regulatory Networks

by Ze-Tian Fang, Rajan Kapoor, Aniruddha Datta, Shuyu Liu, Matthew A. Stull, Paige G. Seitz, Charles D. Johnson, Sakiko Okumoto
Published 2022-10-01

Reference-Guided De Novo Genome Assembly to Dissect a QTL Region for Submergence Tolerance Derived from Ciherang-Sub1

by Yuya Liang, Shichen Wang, Chersty L. Harper, Nithya K. Subramanian, Rodante E. Tabien, Charles D. Johnson, Julia Bailey-Serres, Endang M. Septiningsih
Published 2021-12-01

Accurate Genomic Predictions for Chronic Wasting Disease in U.S. White-Tailed Deer

by Christopher M. Seabury, David L. Oldeschulte, Eric K. Bhattarai, Dhruti Legare, Pamela J. Ferro, Richard P. Metz, Charles D. Johnson, Mitchell A. Lockwood, Tracy A. Nichols
Published 2020-04-01

RNA-seq analysis reveals different drought tolerance mechanisms in two broadly adapted wheat cultivars ‘TAM 111’ and ‘TAM 112’

by Chenggen Chu, Shichen Wang, Li Paetzold, Zhen Wang, Kele Hui, Jackie C. Rudd, Qingwu Xue, Amir M. H. Ibrahim, Richard Metz, Charles D. Johnson, Charles M. Rush, Shuyu Liu
Published 2021-02-01

Mapping QTL for Yield and Its Component Traits Using Wheat (<i>Triticum aestivum</i> L.) RIL Mapping Population from TAM 113 × Gallagher

by Mustafa Cerit, Zhen Wang, Mehmet Dogan, Shuhao Yu, Jorge L. Valenzuela-Antelo, Chenggen Chu, Shichen Wang, Qingwu Xue, Amir M. H. Ibrahim, Jackie C. Rudd, Richard Metz, Charles D. Johnson, Shuyu Liu
Published 2023-09-01

Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus

by Felix D. Guerrero, Noushin Ghaffari, Kylie G. Bendele, Richard P. Metz, C. Michael Dickens, Philip D. Blood, Jason Tidwell, Robert J. Miller, Adalberto A. Pérez de León, Pete D. Teel, Charles D. Johnson
Published 2021-04-01

A draft de novo genome assembly for the northern bobwhite (Colinus virginianus) reveals evidence for a rapid decline in effective population size beginning in the Late Pleistocene.

by Yvette A Halley, Scot E Dowd, Jared E Decker, Paul M Seabury, Eric Bhattarai, Charles D Johnson, Dale Rollins, Ian R Tizard, Donald J Brightsmith, Markus J Peterson, Jeremy F Taylor, Christopher M Seabury
Published 2014-01-01

Northern Bobwhite (Colinus virginianus) Mitochondrial Population Genomics Reveals Structure, Divergence, and Evidence for Heteroplasmy.

by Yvette A Halley, David L Oldeschulte, Eric K Bhattarai, Joshua Hill, Richard P Metz, Charles D Johnson, Steven M Presley, Rebekah E Ruzicka, Dale Rollins, Markus J Peterson, William J Murphy, Christopher M Seabury
Published 2015-01-01

Genome wide identification of QTL associated with yield and yield components in two popular wheat cultivars TAM 111 and TAM 112.

by Yan Yang, Smit Dhakal, Chenggen Chu, Shichen Wang, Qingwu Xue, Jackie C Rudd, Amir M H Ibrahim, Kirk Jessup, Jason Baker, Maria Pilar Fuentealba, Ravindra Devkota, Shannon Baker, Charles D Johnson, Richard Metz, Shuyu Liu
Published 2020-01-01

Annotated Draft Genome Assemblies for the Northern Bobwhite (Colinus virginianus) and the Scaled Quail (Callipepla squamata) Reveal Disparate Estimates of Modern Genome Diversity a...

by David L. Oldeschulte, Yvette A. Halley, Miranda L. Wilson, Eric K. Bhattarai, Wesley Brashear, Joshua Hill, Richard P. Metz, Charles D. Johnson, Dale Rollins, Markus J. Peterson, Derek M. Bickhart, Jared E. Decker, John F. Sewell, Christopher M. Seabury
Published 2017-09-01

Characterization of triatomine bloodmeal sources using direct Sanger sequencing and amplicon deep sequencing methods

by Sujata Balasubramanian, Rachel Curtis-Robles, Bhagath Chirra, Lisa D. Auckland, Alan Mai, Virgilio Bocanegra-Garcia, Patti Clark, Wilhelmina Clark, Mark Cottingham, Geraldine Fleurie, Charles D. Johnson, Richard P. Metz, Shichen Wang, Nicholas J. Hathaway, Jeffrey A. Bailey, Gabriel L. Hamer, Sarah A. Hamer
Published 2022-06-01

Universal promoter scanning by Pol II during transcription initiation in Saccharomyces cerevisiae

by Chenxi Qiu, Huiyan Jin, Irina Vvedenskaya, Jordi Abante Llenas, Tingting Zhao, Indranil Malik, Alex M. Visbisky, Scott L. Schwartz, Ping Cui, Pavel Čabart, Kang Hoo Han, William K. M. Lai, Richard P. Metz, Charles D. Johnson, Sing-Hoi Sze, B. Franklin Pugh, Bryce E. Nickels, Craig D. Kaplan
Published 2020-06-01

Genome-wide QTL mapping of yield and agronomic traits in two widely adapted winter wheat cultivars from multiple mega-environments

by Smit Dhakal, Xiaoxiao Liu, Chenggen Chu, Yan Yang, Jackie C. Rudd, Amir M.H. Ibrahim, Qingwu Xue, Ravindra N. Devkota, Jason A. Baker, Shannon A. Baker, Bryan E. Simoneaux, Geraldine B. Opena, Russell Sutton, Kirk E. Jessup, Kele Hui, Shichen Wang, Charles D. Johnson, Richard P. Metz, Shuyu Liu
Published 2021-11-01

Horse Y chromosome assembly displays unique evolutionary features and putative stallion fertility genes

by Jan E. Janečka, Brian W. Davis, Sharmila Ghosh, Nandina Paria, Pranab J. Das, Ludovic Orlando, Mikkel Schubert, Martin K. Nielsen, Tom A. E. Stout, Wesley Brashear, Gang Li, Charles D. Johnson, Richard P. Metz, Al Muatasim Al Zadjali, Charles C. Love, Dickson D. Varner, Daniel W. Bellott, William J. Murphy, Bhanu P. Chowdhary, Terje Raudsepp
Published 2018-07-01

The Pacific Biosciences de novo assembled genome dataset from a parthenogenetic New Zealand wild population of the longhorned tick, Haemaphysalis longicornis Neumann, 1901

by Felix D. Guerrero, Kylie G. Bendele, Noushin Ghaffari, Joseph Guhlin, Kristene R. Gedye, Kevin E. Lawrence, Peter K. Dearden, Thomas W.R. Harrop, Allen C.G. Heath, Yanni Lun, Richard P. Metz, Pete Teel, Adalberto Perez de Leon, Patrick J. Biggs, William E. Pomroy, Charles D. Johnson, Philip D. Blood, Stanley E. Bellgard, Daniel M. Tompkins
Published 2019-12-01

Brucella activates the host RIDD pathway to subvert BLOS1-directed immune defense

by Kelsey Michelle Wells, Kai He, Aseem Pandey, Ana Cabello, Dongmei Zhang, Jing Yang, Gabriel Gomez, Yue Liu, Haowu Chang, Xueqiang Li, Hao Zhang, Xuehuang Feng, Luciana Fachini da Costa, Richard Metz, Charles D Johnson, Cameron Lee Martin, Jill Skrobarczyk, Luc R Berghman, Kristin L Patrick, Julian Leibowitz, Allison Ficht, Sing-Hoi Sze, Jianxun Song, Xiaoning Qian, Qing-Ming Qin, Thomas A Ficht, Paul de Figueiredo
Published 2022-05-01