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Title: The draft genome of the C 3 panicoid grass species Dichanthelium oligosanthes

Comparisons between C 3 and C 4 grasses often utilize C 3 species from the subfamilies Ehrhartoideae or Pooideae and C 4 species from the subfamily Panicoideae, two clades that diverged over 50 million years ago. The divergence of the C 3 panicoid grass Dichanthelium oligosanthes from the independent C 4 lineages represented by Setaria viridis and Sorghum bicolor occurred approximately 15 million years ago, which is significantly more recent than members of the Bambusoideae, Ehrhartoideae, and Pooideae subfamilies. D. oligosanthes is ideally placed within the panicoid clade for comparative studies of C 3 and C 4 grasses. Here, we report the assembly of the nuclear and chloroplast genomes of D. oligosanthes, from high-throughput short read sequencing data and a comparative transcriptomics analysis of the developing leaf of D. oligosanthes, S. viridis, and S. bicolor. Physiological and anatomical characterizations verified that D. oligosanthes utilizes the C 3 pathway for carbon fixation and lacks Kranz anatomy. Expression profiles of transcription factors along developing leaves of D. oligosanthes and S. viridis were compared with previously published data from S. bicolor, Zea mays, and Oryza sativa to identify a small suite of transcription factors that likely acquired functions specifically related to C 4more » photosynthesis. In conclusion, the phylogenetic location of D. oligosanthes makes it an ideal C 3 plant for comparative analysis of C 4 evolution in the panicoid grasses. This genome will not only provide a better C 3 species for comparisons with C 4 panicoid grasses, but also highlights the power of using high-throughput sequencing to address questions in evolutionary biology.« less
Authors:
 [1] ;  [2] ;  [3] ;  [4] ;  [3] ;  [5] ;  [4] ;  [3] ;  [3]
  1. Donald Danford Plant Science Center, St. Louis, MO (United States); Univ. of Illinois Urbana-Champaign, Urbana, IL (United States)
  2. Donald Danford Plant Science Center, St. Louis, MO (United States); Univ. of Nebraska-Lincoln, Lincoln, NE (United States)
  3. Donald Danford Plant Science Center, St. Louis, MO (United States)
  4. Washington State Univ., Pullman, WA (United States)
  5. Donald Danford Plant Science Center, St. Louis, MO (United States); St. Jude Children's Research Hospital, Memphis, TN (United States)
Publication Date:
Grant/Contract Number:
FG02-12ER16337; SC0008510
Type:
Accepted Manuscript
Journal Name:
Genome Biology (Online)
Additional Journal Information:
Journal Name: Genome Biology (Online); Journal Volume: 17; Journal Issue: 1; Journal ID: ISSN 1474-760X
Publisher:
BioMed Central
Research Org:
Univ. of Illinois, Urbana-Champaign, Urbana, IL (United States)
Sponsoring Org:
USDOE
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 60 APPLIED LIFE SCIENCES; Dichanthelium oligosanthes; PACMAD; Panicoid grass; Photosynthesis; Carbonic anhydrase
OSTI Identifier:
1395571