Comparative analysis of 5,211 leaf ESTs of wild rice (Oryza minuta)

S. K. Cho; S. H. Ok; J. U. Jeung; K. S. Shim; K. W. Jung; M. K. You; K. H. Kang; Y. S. Chung; H. C. Choi; H. P. Moon; J. S. Shin

doi:10.1007/s00299-004-0764-4

Comparative analysis of 5,211 leaf ESTs of wild rice (Oryza minuta)

S. K. Cho, S. H. Ok, J. U. Jeung, K. S. Shim, K. W. Jung, M. K. You, K. H. Kang, Y. S. Chung, H. C. Choi, H. P. Moon, J. S. Shin

Research output: Contribution to journal › Article › peer-review

10 Citations (Scopus)

Abstract

The expressed sequence tags (ESTs) presented in this report are the first transcriptomes of wild rice. A cDNA library was constructed from 4-week-old leaf samples of greenhouse-grown Oryza minuta. The 5,211 cDNA clones of O. minuta represent 3,401 unique sequences, consisting of 2,787 singletons and 614 assembled sequences. Database comparisons of the cDNAs in GenBank's non-redundant databases using BLAST revealed that 4,957 of the 5,211 cDNAs (95.1%) showed a high degree of sequence homology to genes from other organisms. Most of the transcripts identified were genes related to metabolism, energy, protein biosynthesis and subcellular localization. The metabolism and energy categories of the O. minuta ESTs showed a considerably higher gene expression level than those of O. sativa ESTs. These data and genes can be utilized in rice breeding.

Original language	English
Pages (from-to)	839-847
Number of pages	9
Journal	Plant Cell Reports
Volume	22
Issue number	11
DOIs	https://doi.org/10.1007/s00299-004-0764-4
Publication status	Published - 2004 Jun

Bibliographical note

Funding Information:
Acknowledgements This project was funded by a grant from the Crop Functional Genomics Center of the 21st Century Frontier Research Program funded by the Ministry of Science and Technology and by a grant from the BioGreen21 Program of Rural Development Administration.

Keywords

Expressed sequence tag
Functional classification
Oryza minuta
Vegetative stage
Wild rice

ASJC Scopus subject areas

Agronomy and Crop Science
Plant Science

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10.1007/s00299-004-0764-4

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title = "Comparative analysis of 5,211 leaf ESTs of wild rice (Oryza minuta)",

abstract = "The expressed sequence tags (ESTs) presented in this report are the first transcriptomes of wild rice. A cDNA library was constructed from 4-week-old leaf samples of greenhouse-grown Oryza minuta. The 5,211 cDNA clones of O. minuta represent 3,401 unique sequences, consisting of 2,787 singletons and 614 assembled sequences. Database comparisons of the cDNAs in GenBank's non-redundant databases using BLAST revealed that 4,957 of the 5,211 cDNAs (95.1%) showed a high degree of sequence homology to genes from other organisms. Most of the transcripts identified were genes related to metabolism, energy, protein biosynthesis and subcellular localization. The metabolism and energy categories of the O. minuta ESTs showed a considerably higher gene expression level than those of O. sativa ESTs. These data and genes can be utilized in rice breeding.",

keywords = "Expressed sequence tag, Functional classification, Oryza minuta, Vegetative stage, Wild rice",

author = "Cho, {S. K.} and Ok, {S. H.} and Jeung, {J. U.} and Shim, {K. S.} and Jung, {K. W.} and You, {M. K.} and Kang, {K. H.} and Chung, {Y. S.} and Choi, {H. C.} and Moon, {H. P.} and Shin, {J. S.}",

note = "Funding Information: Acknowledgements This project was funded by a grant from the Crop Functional Genomics Center of the 21st Century Frontier Research Program funded by the Ministry of Science and Technology and by a grant from the BioGreen21 Program of Rural Development Administration.",

year = "2004",

month = jun,

doi = "10.1007/s00299-004-0764-4",

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AU - Cho, S. K.

AU - Ok, S. H.

AU - Jeung, J. U.

AU - Shim, K. S.

AU - Jung, K. W.

AU - You, M. K.

AU - Kang, K. H.

AU - Chung, Y. S.

AU - Choi, H. C.

AU - Moon, H. P.

AU - Shin, J. S.

N1 - Funding Information: Acknowledgements This project was funded by a grant from the Crop Functional Genomics Center of the 21st Century Frontier Research Program funded by the Ministry of Science and Technology and by a grant from the BioGreen21 Program of Rural Development Administration.

PY - 2004/6

Y1 - 2004/6

N2 - The expressed sequence tags (ESTs) presented in this report are the first transcriptomes of wild rice. A cDNA library was constructed from 4-week-old leaf samples of greenhouse-grown Oryza minuta. The 5,211 cDNA clones of O. minuta represent 3,401 unique sequences, consisting of 2,787 singletons and 614 assembled sequences. Database comparisons of the cDNAs in GenBank's non-redundant databases using BLAST revealed that 4,957 of the 5,211 cDNAs (95.1%) showed a high degree of sequence homology to genes from other organisms. Most of the transcripts identified were genes related to metabolism, energy, protein biosynthesis and subcellular localization. The metabolism and energy categories of the O. minuta ESTs showed a considerably higher gene expression level than those of O. sativa ESTs. These data and genes can be utilized in rice breeding.

AB - The expressed sequence tags (ESTs) presented in this report are the first transcriptomes of wild rice. A cDNA library was constructed from 4-week-old leaf samples of greenhouse-grown Oryza minuta. The 5,211 cDNA clones of O. minuta represent 3,401 unique sequences, consisting of 2,787 singletons and 614 assembled sequences. Database comparisons of the cDNAs in GenBank's non-redundant databases using BLAST revealed that 4,957 of the 5,211 cDNAs (95.1%) showed a high degree of sequence homology to genes from other organisms. Most of the transcripts identified were genes related to metabolism, energy, protein biosynthesis and subcellular localization. The metabolism and energy categories of the O. minuta ESTs showed a considerably higher gene expression level than those of O. sativa ESTs. These data and genes can be utilized in rice breeding.

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KW - Vegetative stage

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ER -

Comparative analysis of 5,211 leaf ESTs of wild rice (Oryza minuta)

Abstract

Bibliographical note

Keywords

ASJC Scopus subject areas

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