4 Works

Data from: Genome-wide single nucleotide polymorphism (SNP) identification and characterization in a non-model organism, the African buffalo (Syncerus caffer), using next generation sequencing

Nathalie Smitz, Pim Van Hooft, Rasmus Heller, Daniel Cornélis, Philippe Chardonnet, Robert Kraus, Ben J. Greyling, Richard Crooijmans, Martien Groenen, Johan Michaux & Ben Greyling
This study aimed to develop a set of SNP markers with high resolution and accuracy within the African buffalo. Such a set can be used, among others, to depict subtle population genetic structure for a better understanding of buffalo population dynamics. In total, 18.5 million DNA sequences of 76 bp were generated by next generation sequencing on an Illumina Genome Analyzer II from a reduced representation library using DNA from a panel of 13 African...

Data from: Genome-wide mapping of targets of maize histone deacetylase hda101 reveals its function and regulatory mechanism during seed development

Hua Yang, Xinye Liu, Mingming Xin, Jinkun Du, Zhaorong Hu, Huiru Peng, Vincenzo Rossi, Qixin Sun, Zhongfu Ni & Yingyin Yao
Histone deacetylases (HDACs) control histone acetylation levels by removing acetyl group from lysine residues. Maize (Zea mays) HDAC HDA101 influences several aspects of development, including kernel size; however, the molecular mechanism by which HDA101 affects kernel development remains unknown. In this study, we find HDA101 regulates the expression of transfer cell-specific genes, suggesting their mis-regulation may be associated with defects in differentiation of transfer cells and smaller kernels of hda101 mutants. To investigate HDA101 function...

Data from: Evolutionary metabolomics reveals domestication-associated changes in tetraploid wheat kernels

Romina Beleggia, Domenico Rau, Giovanni Laidò, Cristiano Platani, Franca Nigro, Mariagiovanna Fragasso, Pasquale De Vita, Federico Scossa, Alisdair R. Fernie, Zoran Nikoloski & Roberto Papa
Domestication and breeding have influenced the genetic structure of plant populations due to selection for adaptation from natural habitats to agro-ecosystems. Here, we investigate the effects of selection on the contents of 51 primary kernel metabolites and their relationships in three Triticum turgidum L. subspecies (i.e., wild emmer, emmer, durum wheat) that represent the major steps of tetraploid wheat domestication. We present a methodological pipeline to identify the signature of selection for molecular phenotypic traits...

Data from: Retrotransposon proliferation coincident with the evolution of dioecy in asparagus

Alex Harkess, Francesco Mercati, Loredana Abbate, Michael McKain, J. Chris Pires, Tea Sala, Francesco Sunseri, Agostino Falavigna & Jim Leebens-Mack
Current phylogenetic sampling reveals that dioecy and an XY sex chromosome pair evolved once or possibly twice in the genus Asparagus. Although there appear to be some lineage-specific polyploidization events, the base chromosome number of 2n=2x=20 is relatively conserved across the Asparagus genus. Regardless, dioecious species tend to have larger genomes than hermaphroditic species. Here we test whether this genome size expansion in dioecious species is related to a polyploidization and subsequent chromosome fusion or...

Registration Year

  • 2016

Resource Types

  • Dataset


  • Agricultural Research Council
  • Donald Danforth Plant Science Center
  • University of Liège
  • University of Georgia
  • University of Sassari
  • Max Planck Institute for Molecular Plant Physiology
  • University of Missouri
  • University of Copenhagen
  • University of Reggio Calabria
  • Wageningen University & Research