TY - JOUR
T1 - Sorghum genome sequencing by methylation filtration
AU - Bedell, Joseph A.
AU - Budiman, Muhammad A.
AU - Nunberg, Andrew
AU - Citek, Robert W.
AU - Robbins, Dan
AU - Jones, Joshua
AU - Flick, Elizabeth
AU - Rohlfing, Theresa
AU - Fries, Jason
AU - Bradford, Kourtney
AU - McMenamy, Jennifer
AU - Smith, Michael
AU - Holeman, Heather
AU - Roe, Bruce A.
AU - Wiley, Graham
AU - Korf, Ian F
AU - Rabinowicz, Pablo D.
AU - Lakey, Nathan
AU - Richard McCombie, W.
AU - Jeddeloh, Jeffrey A.
AU - Martienssen, Robert A.
PY - 2005/1
Y1 - 2005/1
N2 - Sorghum bicolor is a close relative of maize and is a staple crop in Africa and much of the developing world because of its superior tolerance of arid growth conditions. We have generated sequence from the hypomethylated portion of the sorghum genome by applying methylation filtration (MF) technology. The evidence suggests that 96% of the genes have been sequence tagged, with an average coverage of 65% across their length. Remarkably, this level of gene discovery was accomplished after generating a raw coverage of less than 300 megabases of the 735-megabase genome. MF preferentially captures exons and introns, promoters, microRNAs, and simple sequence repeats, and minimizes interspersed repeats, thus providing a robust view of the functional parts of the genome. The sorghum MF sequence set is beneficial to research on sorghum and is also a powerful resource for comparative genomics among the grasses and across the entire plant kingdom. Thousands of hypothetical gene predictions in rice and Arabidopsis are supported by the sorghum dataset, and genomic similarities highlight evolutionarily conserved regions that will lead to a better understanding of rice and Arabidopsis. Copyright:
AB - Sorghum bicolor is a close relative of maize and is a staple crop in Africa and much of the developing world because of its superior tolerance of arid growth conditions. We have generated sequence from the hypomethylated portion of the sorghum genome by applying methylation filtration (MF) technology. The evidence suggests that 96% of the genes have been sequence tagged, with an average coverage of 65% across their length. Remarkably, this level of gene discovery was accomplished after generating a raw coverage of less than 300 megabases of the 735-megabase genome. MF preferentially captures exons and introns, promoters, microRNAs, and simple sequence repeats, and minimizes interspersed repeats, thus providing a robust view of the functional parts of the genome. The sorghum MF sequence set is beneficial to research on sorghum and is also a powerful resource for comparative genomics among the grasses and across the entire plant kingdom. Thousands of hypothetical gene predictions in rice and Arabidopsis are supported by the sorghum dataset, and genomic similarities highlight evolutionarily conserved regions that will lead to a better understanding of rice and Arabidopsis. Copyright:
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U2 - 10.1371/journal.pbio.0030013
DO - 10.1371/journal.pbio.0030013
M3 - Article
C2 - 15660154
AN - SCOPUS:20044382805
VL - 3
JO - PLoS Biology
JF - PLoS Biology
SN - 1544-9173
IS - 1
ER -