M
Matthew B. Hufford
Researcher at Iowa State University
Publications - 92
Citations - 5417
Matthew B. Hufford is an academic researcher from Iowa State University. The author has contributed to research in topics: Population & Domestication. The author has an hindex of 25, co-authored 82 publications receiving 3902 citations. Previous affiliations of Matthew B. Hufford include University of California, Davis.
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Journal ArticleDOI
Comparative population genomics of maize domestication and improvement
Matthew B. Hufford,Xun Xu,Joost van Heerwaarden,Tanja Pyhäjärvi,Jer Ming Chia,Reed A. Cartwright,Robert J. Elshire,Jeffrey C. Glaubitz,Kate E. Guill,Kate E. Guill,Shawn M. Kaeppler,Jinsheng Lai,Peter L. Morrell,Laura M. Shannon,Chi Song,Nathan M. Springer,Ruth A. Swanson-Wagner,Peter Tiffin,Jun Wang,Gengyun Zhang,John Doebley,Michael D. McMullen,Michael D. McMullen,Doreen Ware,Doreen Ware,Edward S. Buckler,Edward S. Buckler,Shuang Yang,Jeffrey Ross-Ibarra +28 more
TL;DR: A comprehensive assessment of the evolution of modern maize based on the genome-wide resequencing of 75 wild, landrace and improved maize lines finds evidence of recovery of diversity after domestication, likely introgression from wild relatives, and evidence for stronger selection during domestication than improvement.
Journal ArticleDOI
Maize HapMap2 identifies extant variation from a genome in flux
Jer Ming Chia,Chi Song,Peter J. Bradbury,Peter J. Bradbury,Denise E. Costich,Denise E. Costich,Natalia de Leon,Natalia de Leon,John Doebley,Robert J. Elshire,Brandon S. Gaut,Laura Geller,Jeffrey C. Glaubitz,Michael A. Gore,Kate E. Guill,Kate E. Guill,James B. Holland,James B. Holland,Matthew B. Hufford,Jinsheng Lai,Meng Li,Xin Liu,Yanli Lu,Richard W. McCombie,Rebecca Nelson,Jesse Poland,Jesse Poland,Boddupalli M. Prasanna,Tanja Pyhäjärvi,Tingzhao Rong,Rajandeep S. Sekhon,Rajandeep S. Sekhon,Qi Sun,Maud I. Tenaillon,Maud I. Tenaillon,Feng Tian,Jun Wang,Xun Xu,Zhiwu Zhang,Shawn M. Kaeppler,Shawn M. Kaeppler,Jeffrey Ross-Ibarra,Michael D. McMullen,Michael D. McMullen,Edward S. Buckler,Edward S. Buckler,Gengyun Zhang,Yunbi Xu,Doreen Ware,Doreen Ware +49 more
TL;DR: It is found that structural variations are pervasive in the Z. mays genome and are enriched at loci associated with important traits and the larger Tripsacum genome can be explained by transposable element abundance rather than an allopolyploid origin.
Journal ArticleDOI
Benchmarking transposable element annotation methods for creation of a streamlined, comprehensive pipeline
Shujun Ou,Weija Su,Yi Liao,Kapeel Chougule,Jireh Agda,Adam J. Hellinga,Carlos Santiago Blanco Lugo,Tyler A. Elliott,Doreen Ware,Doreen Ware,Thomas Peterson,Ning Jiang,Candice N. Hirsch,Matthew B. Hufford +13 more
TL;DR: A comprehensive pipeline called Extensive de-novo TE Annotator (EDTA) is created that produces a filtered non-redundant TE library for annotation of structurally intact and fragmented elements and will greatly facilitate TE annotation in eukaryotic genomes.
Journal ArticleDOI
The Genomic Signature of Crop-Wild Introgression in Maize
Matthew B. Hufford,Pesach Lubinksy,Tanja Pyhäjärvi,Michael T. Devengenzo,Norman C. Ellstrand,Jeffrey Ross-Ibarra +5 more
TL;DR: This study assessed patterns of genome-wide introgression based on 39,029 single nucleotide polymorphisms genotyped in 189 individuals from nine sympatric maize-mexicana populations and reference allopatric populations and found widespread evidence forintrogression in both directions of gene flow.
Journal ArticleDOI
Controlling invasive species in complex social landscapes
Rebecca S. Epanchin-Niell,Matthew B. Hufford,Clare E. Aslan,Jason P. Sexton,Jeffrey D. Port,Timothy M. Waring +5 more
TL;DR: In this article, the authors discuss the challenges posed by management mosaics, using a case study of the yellow starthistle (Centaurea solstitialis) invasion in the Sierra Nevada foothills of California.