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Items: 1 to 20 of 28

1.
Archetypes of inflorescence: genome-wide association networks of panicle morphometric, growth, and disease variables in a multiparent oat population
Craig H Carlson, Jason D Fiedler, Sepehr Mohajeri Naraghi, Eric S Nazareno, Naa Korkoi Ardayfio, Michael S McMullen, Shahryar F Kianian
Genetics. 2023 Feb; 223(2): iyac128. Published online 2022 Sep 15. doi: 10.1093/genetics/iyac128
PMCID:
PMC9910404
AbstractArticlePDF–2.1M
2.
Complete genome of the toxic mold Aspergillus pseudotamarii isolate NRRL 25517 reveals genomic instability of the aflatoxin biosynthesis cluster
Andrew W Legan, Brian M Mack, Hillary L Mehl, Marina Wissotski, Connel Ching’anda, Lourena A Maxwell, Kenneth A Callicott
G3 (Bethesda) 2023 Sep; 13(9): jkad150. Published online 2023 Jul 4. doi: 10.1093/g3journal/jkad150
PMCID:
PMC10468309
AbstractArticlePDF–507K
3.
Complete Structural Predictions of the Proteome of African Swine Fever Virus Strain Georgia 2007
Edward Spinard, Paul Azzinaro, Ayushi Rai, Nallely Espinoza, Elizabeth Ramirez-Medina, Alyssa Valladares, Manuel V. Borca, Douglas P. Gladue
Microbiol Resour Announc. 2022 Dec; 11(12): e00881-22. Published online 2022 Nov 21. doi: 10.1128/mra.00881-22
PMCID:
PMC9753626
AbstractArticlePDF–212K
4.
PanEffect: a pan-genome visualization tool for variant effects in maize
Carson M Andorf, Olivia C Haley, Rita K Hayford, John L Portwood, II, Stephen Harding, Shatabdi Sen, Ethalinda K Cannon, Jack M Gardiner, Hye-Seon Kim, Margaret R Woodhouse
Bioinformatics. 2024 Feb; 40(2): btae073. Published online 2024 Feb 9. doi: 10.1093/bioinformatics/btae073
PMCID:
PMC10881103
AbstractArticlePDF–799K
5.
​Fusarium Protein Toolkit: a web-based resource for structural and variant analysis of Fusarium species
Hye-Seon Kim, Olivia C. Haley, John L. Portwood II, Stephen Harding, Robert H. Proctor, Margaret R. Woodhouse, Taner Z. Sen, Carson M. Andorf
BMC Microbiol. 2024; 24: 326. Published online 2024 Sep 6. doi: 10.1186/s12866-024-03480-5
PMCID:
PMC11378500
AbstractArticlePDF–5.7M
6.
Genetic diversity, population structure, and selection of breeder germplasm subsets from the USDA sweetpotato (Ipomoea batatas) collection
Tyler J. Slonecki, William B. Rutter, Bode A. Olukolu, G. Craig Yencho, D. Michael Jackson, Phillip A. Wadl
Front Plant Sci. 2022; 13: 1022555. Published online 2023 Feb 2. doi: 10.3389/fpls.2022.1022555
PMCID:
PMC9932972
AbstractArticlePDF–6.2M
7.
Continuous chromosome-scale haplotypes assembled from a single interspecies F1 hybrid of yak and cattle
Edward S Rice, Sergey Koren, Arang Rhie, Michael P Heaton, Theodore S Kalbfleisch, Timothy Hardy, Peter H Hackett, Derek M Bickhart, Benjamin D Rosen, Brian Vander Ley, Nicholas W Maurer, Richard E Green, Adam M Phillippy, Jessica L Petersen, Timothy P L Smith
Gigascience. 2020 Apr; 9(4): giaa029. Published online 2020 Apr 3. doi: 10.1093/gigascience/giaa029
PMCID:
PMC7118895
AbstractArticlePDF–1.3M
8.
Telomere-to-telomere assemblies of cattle and sheep Y-chromosomes uncover divergent structure and gene content
Temitayo A. Olagunju, Benjamin D. Rosen, Holly L. Neibergs, Gabrielle M. Becker, Kimberly M. Davenport, Christine G. Elsik, Tracy S. Hadfield, Sergey Koren, Kristen L. Kuhn, Arang Rhie, Katie A. Shira, Amy L. Skibiel, Morgan R. Stegemiller, Jacob W. Thorne, Patricia Villamediana, Noelle E. Cockett, Brenda M. Murdoch, Timothy P. L. Smith
Nat Commun. 2024; 15: 8277. Published online 2024 Sep 27. doi: 10.1038/s41467-024-52384-5
PMCID:
PMC11436988
AbstractArticlePDF–2.5M
9.
Gaur genome reveals expansion of sperm odorant receptors in domesticated cattle
Wai Yee Low, Benjamin D. Rosen, Yan Ren, Derek M. Bickhart, Thu-Hien To, Fergal J. Martin, Konstantinos Billis, Tad S. Sonstegard, Shawn T. Sullivan, Stefan Hiendleder, John L. Williams, Michael P. Heaton, Timothy P. L. Smith
BMC Genomics. 2022; 23: 344. Published online 2022 May 4. doi: 10.1186/s12864-022-08561-1
PMCID:
PMC9069736
AbstractArticlePDF–2.5M
10.
A pseudomolecule assembly of the Rocky Mountain elk genome
Rick E. Masonbrink, David Alt, Darrell O. Bayles, Paola Boggiatto, William Edwards, Fred Tatum, Jeffrey Williams, Jennifer Wilson-Welder, Aleksey Zimin, Andrew Severin, Steven Olsen
PLoS One. 2021; 16(4): e0249899. Published online 2021 Apr 28. doi: 10.1371/journal.pone.0249899
PMCID:
PMC8081196
AbstractArticlePDF–883K
11.
Association of TLR2 haplotypes encoding Q650 with reduced susceptibility to ovine Johne’s disease in Turkish sheep
Yalçın Yaman, Ramazan Aymaz, Murat Keleş, Veysel Bay, Cemal Ün, Michael P. Heaton
Sci Rep. 2021; 11: 7088. Published online 2021 Mar 29. doi: 10.1038/s41598-021-86605-4
PMCID:
PMC8007707
AbstractArticlePDF–1.8M
12.
Structural variant-based pangenome construction has low sensitivity to variability of haplotype-resolved bovine assemblies
Alexander S. Leonard, Danang Crysnanto, Zih-Hua Fang, Michael P. Heaton, Brian L. Vander Ley, Carolina Herrera, Heinrich Bollwein, Derek M. Bickhart, Kristen L. Kuhn, Timothy P. L. Smith, Benjamin D. Rosen, Hubert Pausch
Nat Commun. 2022; 13: 3012. Published online 2022 May 31. doi: 10.1038/s41467-022-30680-2
PMCID:
PMC9156671
AbstractArticlePDF–3.1M
13.
Tissue-specific gene expression and protein abundance patterns are associated with fractionation bias in maize
Jesse R. Walsh, Margaret R. Woodhouse, Carson M. Andorf, Taner Z. Sen
BMC Plant Biol. 2020; 20: 4. Published online 2020 Jan 3. doi: 10.1186/s12870-019-2218-8
PMCID:
PMC6942271
AbstractArticlePDF–3.0M
14.
A Reference Genome Assembly of American Bison, Bison bison bison
Jonas Oppenheimer, Benjamin D Rosen, Michael P Heaton, Brian L Vander Ley, Wade R Shafer, Fred T Schuetze, Brad Stroud, Larry A Kuehn, Jennifer C McClure, Jennifer P Barfield, Harvey D Blackburn, Theodore S Kalbfleisch, Derek M Bickhart, Kimberly M Davenport, Kristen L Kuhn, Richard E Green, Beth Shapiro, Timothy P L Smith
J Hered. 2021 Mar; 112(2): 174–183. Published online 2021 Feb 17. doi: 10.1093/jhered/esab003
PMCID:
PMC8006816
AbstractArticlePDF–1.9M
15.
A Reference Genome Assembly of Simmental Cattle, Bos taurus taurus
Michael P Heaton, Timothy P L Smith, Derek M Bickhart, Brian L Vander Ley, Larry A Kuehn, Jonas Oppenheimer, Wade R Shafer, Fred T Schuetze, Brad Stroud, Jennifer C McClure, Jennifer P Barfield, Harvey D Blackburn, Theodore S Kalbfleisch, Kimberly M Davenport, Kristen L Kuhn, Richard E Green, Beth Shapiro, Benjamin D Rosen
J Hered. 2021 Mar; 112(2): 184–191. Published online 2021 Jan 13. doi: 10.1093/jhered/esab002
Correction in:
J Hered. 2021 Sep; 112(6): 565.
PMCID:
PMC8006815
AbstractArticlePDF–14M
16.
Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation
Derek M. Bickhart, Mick Watson, Sergey Koren, Kevin Panke-Buisse, Laura M. Cersosimo, Maximilian O. Press, Curtis P. Van Tassell, Jo Ann S. Van Kessel, Bradd J. Haley, Seon Woo Kim, Cheryl Heiner, Garret Suen, Kiranmayee Bakshy, Ivan Liachko, Shawn T. Sullivan, Phillip R. Myer, Jay Ghurye, Mihai Pop, Paul J. Weimer, Adam M. Phillippy, Timothy P. L. Smith
Genome Biol. 2019; 20: 153. Published online 2019 Aug 2. doi: 10.1186/s13059-019-1760-x
PMCID:
PMC6676630
AbstractArticlePDF–3.5M
17.
PARNAS: Objectively Selecting the Most Representative Taxa on a Phylogeny
Alexey Markin, Sanket Wagle, Siddhant Grover, Amy L Vincent Baker, Oliver Eulenstein, Tavis K Anderson
Syst Biol. 2023 Sep; 72(5): 1052–1063. Published online 2023 May 19. doi: 10.1093/sysbio/syad028
PMCID:
PMC10627562
AbstractArticlePDF–1.4M
18.
The Genome of Arsenophonus sp. and Its Potential Contribution in the Corn Planthopper, Peregrinus maidis
Yu-Hui Wang, Aram Mikaelyan, Brad S. Coates, Marcé Lorenzen
Insects. 2024 Feb; 15(2): 113. Published online 2024 Feb 5. doi: 10.3390/insects15020113
PMCID:
PMC10889269
AbstractArticlePDF–1.7M
19.
Antigenic and genetic evolution of contemporary swine H1 influenza viruses in the United States
Daniela S. Rajao, Tavis K. Anderson, Pravina Kitikoon, Jered Stratton, Nicola S. Lewis, Amy L. Vincent
Virology. Author manuscript; available in PMC 2021 Nov 22.
Published in final edited form as: Virology. 2018 May; 518: 45–54. Published online 2018 Feb 16. doi: 10.1016/j.virol.2018.02.006
PMCID:
PMC8608352
AbstractArticlePDF–1.7M
20.
Exploring the fragmentation efficiency of proteins analyzed by MALDI-TOF-TOF tandem mass spectrometry using computational and statistical analyses
Jihyun Park, Clifton K. Fagerquist
PLoS One. 2024; 19(5): e0299287. Published online 2024 May 3. doi: 10.1371/journal.pone.0299287
PMCID:
PMC11068200
AbstractArticlePDF–1.9M

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