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Title: Transcriptome-Based Differentiation of Closely-Related Miscanthus Lines

Abstract

Distinguishing between individuals is critical to those conducting animal/plant breeding, food safety/quality research, diagnostic and clinical testing, and evolutionary biology studies. Classical genetic identification studies are based on marker polymorphisms, but polymorphism-based techniques are time and labor intensive and often cannot distinguish between closely related individuals. Illumina sequencing technologies provide the detailed sequence data required for rapid and efficient differentiation of related species, lines/cultivars, and individuals in a cost-effective manner. Here we describe the use of Illumina high-throughput exome sequencing, coupled with SNP mapping, as a rapid means of distinguishing between related cultivars of the lignocellulosic bioenergy crop giant miscanthus (Miscanthus6giganteus). We provide the first exome sequence database for Miscanthus species complete with Gene Ontology (GO) functional annotations."

Authors:
 [1];  [1];  [2];  [3];  [4];  [2];  [5]
  1. Mississippi State Univ., Mississippi State, MS (United States). Inst. for Genomics
  2. Mississippi State Univ., Mississippi State, MS (United States). Inst. for Genomics; Mississippi State Univ., Mississippi State, MS (United States). College of Veterinary Medicine
  3. Mississippi State Univ., Mississippi State, MS (United States). Inst. for Genomics; Mississippi State Univ., Mississippi State, MS (United States). Dept. of Biochemistry, Molecular Biology, Entomology and Plant Pathology
  4. Mississippi State Univ., Mississippi State, MS (United States). Dept. of Plant and Soil Sciences
  5. Mississippi State Univ., Mississippi State, MS (United States). Inst. for Genomics; Mississippi State Univ., Mississippi State, MS (United States). Dept. of Plant and Soil Sciences
Publication Date:
Research Org.:
Mississippi State Univ., Mississippi State, MS (United States)
Sponsoring Org.:
U.S. Department of Agriculture; National Science Foundation (NSF); USDOE
OSTI Identifier:
1079518
Report Number(s):
GO8602538
Journal ID: ISSN 1932-6203
Grant/Contract Number:  
FG36-06GO86025; 2009-34609-20222; ARS-58-6402-7-241; DBI-0421717; MCB-0841821
Resource Type:
Accepted Manuscript
Journal Name:
PLoS ONE
Additional Journal Information:
Journal Volume: 7; Journal Issue: 1; Journal ID: ISSN 1932-6203
Publisher:
Public Library of Science
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Chouvarine, Philippe, Cooksey, Amanda M., McCarthy, Fiona M., Ray, David A., Baldwin, Brian S., Burgess, Shane C., and Peterson, Daniel G. Transcriptome-Based Differentiation of Closely-Related Miscanthus Lines. United States: N. p., 2012. Web. doi:10.1371/journal.pone.0029850.
Chouvarine, Philippe, Cooksey, Amanda M., McCarthy, Fiona M., Ray, David A., Baldwin, Brian S., Burgess, Shane C., & Peterson, Daniel G. Transcriptome-Based Differentiation of Closely-Related Miscanthus Lines. United States. doi:10.1371/journal.pone.0029850.
Chouvarine, Philippe, Cooksey, Amanda M., McCarthy, Fiona M., Ray, David A., Baldwin, Brian S., Burgess, Shane C., and Peterson, Daniel G. Tue . "Transcriptome-Based Differentiation of Closely-Related Miscanthus Lines". United States. doi:10.1371/journal.pone.0029850. https://www.osti.gov/servlets/purl/1079518.
@article{osti_1079518,
title = {Transcriptome-Based Differentiation of Closely-Related Miscanthus Lines},
author = {Chouvarine, Philippe and Cooksey, Amanda M. and McCarthy, Fiona M. and Ray, David A. and Baldwin, Brian S. and Burgess, Shane C. and Peterson, Daniel G.},
abstractNote = {Distinguishing between individuals is critical to those conducting animal/plant breeding, food safety/quality research, diagnostic and clinical testing, and evolutionary biology studies. Classical genetic identification studies are based on marker polymorphisms, but polymorphism-based techniques are time and labor intensive and often cannot distinguish between closely related individuals. Illumina sequencing technologies provide the detailed sequence data required for rapid and efficient differentiation of related species, lines/cultivars, and individuals in a cost-effective manner. Here we describe the use of Illumina high-throughput exome sequencing, coupled with SNP mapping, as a rapid means of distinguishing between related cultivars of the lignocellulosic bioenergy crop giant miscanthus (Miscanthus6giganteus). We provide the first exome sequence database for Miscanthus species complete with Gene Ontology (GO) functional annotations."},
doi = {10.1371/journal.pone.0029850},
journal = {PLoS ONE},
number = 1,
volume = 7,
place = {United States},
year = {2012},
month = {1}
}

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Cited by: 14 works
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