Profiling the developing Jatropha curcas L: Seed transcriptome by pyrosequencing

TY - JOUR

T1 - Profiling the developing Jatropha curcas L

T2 - Seed transcriptome by pyrosequencing

AU - King, Andrew J

AU - Li, Yi

AU - Graham, Ian Alexander

PY - 2011/9

Y1 - 2011/9

N2 - Jatropha curcas L. has received much attention recently as a potential oilseed crop for the production of renewable oil. Despite the interest in this crop, relatively little is known on the molecular biology of this species compared with more established oilseed crops. To gain a more detailed understanding of the processes involved in deposition of oil and protein within Jatropha seeds, we conducted high-throughput sequencing analysis of the transcriptome of developing J. curcas seeds using 454 sequencing. A single sequencing run yielded 195,692 sequences (46 Mbp) of raw sequence data. Assembly of this sequence data produced 12,419 contigs and 17,333 singletons. BLASTX searches of the contigs revealed that storage proteins were the most abundant transcripts. Oleosins, ribosomal proteins, metallothioneins and late embryogenesis abundant proteins were also highly represented. Curcin, a type-I ribosome-inactivating protein, accounted for 0.7% of the transcriptome. No transcripts for type-II ribosome-inactivating proteins were found, suggesting that these are not present in the seeds of J. curcas. To test the power of 454 sequencing compared to conventional gene sequencing as a tool for gene discovery, a search of the homologues for genes involved in the conversion of sucrose to triacylglycerol was conducted. Hits for all the known genes in this process were obtained. Pyrosequencing of the J. curcas developing seed transcriptome has provided a valuable increase in the amount of sequence data currently available for this species. The sequence data will be of great use to those engaged in J. curcas research and crop improvement.

AB - Jatropha curcas L. has received much attention recently as a potential oilseed crop for the production of renewable oil. Despite the interest in this crop, relatively little is known on the molecular biology of this species compared with more established oilseed crops. To gain a more detailed understanding of the processes involved in deposition of oil and protein within Jatropha seeds, we conducted high-throughput sequencing analysis of the transcriptome of developing J. curcas seeds using 454 sequencing. A single sequencing run yielded 195,692 sequences (46 Mbp) of raw sequence data. Assembly of this sequence data produced 12,419 contigs and 17,333 singletons. BLASTX searches of the contigs revealed that storage proteins were the most abundant transcripts. Oleosins, ribosomal proteins, metallothioneins and late embryogenesis abundant proteins were also highly represented. Curcin, a type-I ribosome-inactivating protein, accounted for 0.7% of the transcriptome. No transcripts for type-II ribosome-inactivating proteins were found, suggesting that these are not present in the seeds of J. curcas. To test the power of 454 sequencing compared to conventional gene sequencing as a tool for gene discovery, a search of the homologues for genes involved in the conversion of sucrose to triacylglycerol was conducted. Hits for all the known genes in this process were obtained. Pyrosequencing of the J. curcas developing seed transcriptome has provided a valuable increase in the amount of sequence data currently available for this species. The sequence data will be of great use to those engaged in J. curcas research and crop improvement.

KW - Biodiesel

KW - Expressed sequence tags

KW - Jatropha curcas

KW - Developing seeds

UR - http://www.scopus.com/inward/record.url?scp=79960600863&partnerID=8YFLogxK

U2 - 10.1007/s12155-011-9114-x

DO - 10.1007/s12155-011-9114-x

M3 - Article

VL - 4

SP - 211

EP - 221

JO - BioEnergy Research

JF - BioEnergy Research

IS - 3

ER -