Digital expression profiling of a grape-bud EST collection leads to new insight into molecular events during grape-bud dormancy release

Tsvika Keilin, Xuequn Pang, Jaganatha Venkateswari, Tamar Halaly, Omer Crane, Alexandra Keren, Aliza Ogrodovitch, Ron Ophir, Hanne Volpin, David W Galbraith, Etti Or

Research output: Contribution to journalArticle

37 Citations (Scopus)

Abstract

The application of genomic approaches may serve as an initial step in broadening our understanding of the complex network of biochemical and cellular processes responsible for the regulation and execution of grape-bud dormancy release. However, bud tissue in general, and the dormant bud in particular, are under-represented in the public Vitis genomic resources. Here we describe a large-scale grape-bud EST collection representing a wide range of bud developmental stages. A collection of 5516 consensus sequences is presented, of which 59% were not included within the Vitis TIGR collection at the time of current analysis. About 22% of these transcripts bear no resemblance to any known plant transcript and thus corroborate the need for this targeted EST collection. The added value of the presented EST collection lies in the conferred ability to compare EST frequencies between the different cDNA libraries. Such comparison was implemented and allowed us to identify several genes/functions whose expression is altered in response to the dormancy-release treatment. Based on this analysis, it is suggested that oxidative stress, calcium signaling, intracellular vesicle trafficking and anaerobic mode of carbohydrate metabolism play a role in the regulation and execution of grape-bud dormancy release.

Original languageEnglish (US)
Pages (from-to)446-457
Number of pages12
JournalPlant Science
Volume173
Issue number4
DOIs
StatePublished - Oct 2007

Fingerprint

Expressed Sequence Tags
Vitis
dormancy
grapes
buds
Biochemical Phenomena
Diaspidiotus uvae
Oxidative stress
Complex networks
Gene Library
Calcium Signaling
Consensus Sequence
genomics
Carbohydrate Metabolism
Genes
consensus sequence
value added
carbohydrate metabolism
Tissue
Calcium

Keywords

  • Bud dormancy
  • Carbohydrate metabolism
  • Expressed sequence tag (EST)
  • Oxidative stress
  • Vesicle trafficking
  • Vitis

ASJC Scopus subject areas

  • Plant Science
  • Biochemistry
  • Biotechnology

Cite this

Digital expression profiling of a grape-bud EST collection leads to new insight into molecular events during grape-bud dormancy release. / Keilin, Tsvika; Pang, Xuequn; Venkateswari, Jaganatha; Halaly, Tamar; Crane, Omer; Keren, Alexandra; Ogrodovitch, Aliza; Ophir, Ron; Volpin, Hanne; Galbraith, David W; Or, Etti.

In: Plant Science, Vol. 173, No. 4, 10.2007, p. 446-457.

Research output: Contribution to journalArticle

Keilin, T, Pang, X, Venkateswari, J, Halaly, T, Crane, O, Keren, A, Ogrodovitch, A, Ophir, R, Volpin, H, Galbraith, DW & Or, E 2007, 'Digital expression profiling of a grape-bud EST collection leads to new insight into molecular events during grape-bud dormancy release', Plant Science, vol. 173, no. 4, pp. 446-457. https://doi.org/10.1016/j.plantsci.2007.07.004
Keilin, Tsvika ; Pang, Xuequn ; Venkateswari, Jaganatha ; Halaly, Tamar ; Crane, Omer ; Keren, Alexandra ; Ogrodovitch, Aliza ; Ophir, Ron ; Volpin, Hanne ; Galbraith, David W ; Or, Etti. / Digital expression profiling of a grape-bud EST collection leads to new insight into molecular events during grape-bud dormancy release. In: Plant Science. 2007 ; Vol. 173, No. 4. pp. 446-457.
@article{108c3f0759d7448ebb84a9adfd632f8e,
title = "Digital expression profiling of a grape-bud EST collection leads to new insight into molecular events during grape-bud dormancy release",
abstract = "The application of genomic approaches may serve as an initial step in broadening our understanding of the complex network of biochemical and cellular processes responsible for the regulation and execution of grape-bud dormancy release. However, bud tissue in general, and the dormant bud in particular, are under-represented in the public Vitis genomic resources. Here we describe a large-scale grape-bud EST collection representing a wide range of bud developmental stages. A collection of 5516 consensus sequences is presented, of which 59{\%} were not included within the Vitis TIGR collection at the time of current analysis. About 22{\%} of these transcripts bear no resemblance to any known plant transcript and thus corroborate the need for this targeted EST collection. The added value of the presented EST collection lies in the conferred ability to compare EST frequencies between the different cDNA libraries. Such comparison was implemented and allowed us to identify several genes/functions whose expression is altered in response to the dormancy-release treatment. Based on this analysis, it is suggested that oxidative stress, calcium signaling, intracellular vesicle trafficking and anaerobic mode of carbohydrate metabolism play a role in the regulation and execution of grape-bud dormancy release.",
keywords = "Bud dormancy, Carbohydrate metabolism, Expressed sequence tag (EST), Oxidative stress, Vesicle trafficking, Vitis",
author = "Tsvika Keilin and Xuequn Pang and Jaganatha Venkateswari and Tamar Halaly and Omer Crane and Alexandra Keren and Aliza Ogrodovitch and Ron Ophir and Hanne Volpin and Galbraith, {David W} and Etti Or",
year = "2007",
month = "10",
doi = "10.1016/j.plantsci.2007.07.004",
language = "English (US)",
volume = "173",
pages = "446--457",
journal = "Plant Science",
issn = "0168-9452",
publisher = "Elsevier Ireland Ltd",
number = "4",

}

TY - JOUR

T1 - Digital expression profiling of a grape-bud EST collection leads to new insight into molecular events during grape-bud dormancy release

AU - Keilin, Tsvika

AU - Pang, Xuequn

AU - Venkateswari, Jaganatha

AU - Halaly, Tamar

AU - Crane, Omer

AU - Keren, Alexandra

AU - Ogrodovitch, Aliza

AU - Ophir, Ron

AU - Volpin, Hanne

AU - Galbraith, David W

AU - Or, Etti

PY - 2007/10

Y1 - 2007/10

N2 - The application of genomic approaches may serve as an initial step in broadening our understanding of the complex network of biochemical and cellular processes responsible for the regulation and execution of grape-bud dormancy release. However, bud tissue in general, and the dormant bud in particular, are under-represented in the public Vitis genomic resources. Here we describe a large-scale grape-bud EST collection representing a wide range of bud developmental stages. A collection of 5516 consensus sequences is presented, of which 59% were not included within the Vitis TIGR collection at the time of current analysis. About 22% of these transcripts bear no resemblance to any known plant transcript and thus corroborate the need for this targeted EST collection. The added value of the presented EST collection lies in the conferred ability to compare EST frequencies between the different cDNA libraries. Such comparison was implemented and allowed us to identify several genes/functions whose expression is altered in response to the dormancy-release treatment. Based on this analysis, it is suggested that oxidative stress, calcium signaling, intracellular vesicle trafficking and anaerobic mode of carbohydrate metabolism play a role in the regulation and execution of grape-bud dormancy release.

AB - The application of genomic approaches may serve as an initial step in broadening our understanding of the complex network of biochemical and cellular processes responsible for the regulation and execution of grape-bud dormancy release. However, bud tissue in general, and the dormant bud in particular, are under-represented in the public Vitis genomic resources. Here we describe a large-scale grape-bud EST collection representing a wide range of bud developmental stages. A collection of 5516 consensus sequences is presented, of which 59% were not included within the Vitis TIGR collection at the time of current analysis. About 22% of these transcripts bear no resemblance to any known plant transcript and thus corroborate the need for this targeted EST collection. The added value of the presented EST collection lies in the conferred ability to compare EST frequencies between the different cDNA libraries. Such comparison was implemented and allowed us to identify several genes/functions whose expression is altered in response to the dormancy-release treatment. Based on this analysis, it is suggested that oxidative stress, calcium signaling, intracellular vesicle trafficking and anaerobic mode of carbohydrate metabolism play a role in the regulation and execution of grape-bud dormancy release.

KW - Bud dormancy

KW - Carbohydrate metabolism

KW - Expressed sequence tag (EST)

KW - Oxidative stress

KW - Vesicle trafficking

KW - Vitis

UR - http://www.scopus.com/inward/record.url?scp=34548137735&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=34548137735&partnerID=8YFLogxK

U2 - 10.1016/j.plantsci.2007.07.004

DO - 10.1016/j.plantsci.2007.07.004

M3 - Article

AN - SCOPUS:34548137735

VL - 173

SP - 446

EP - 457

JO - Plant Science

JF - Plant Science

SN - 0168-9452

IS - 4

ER -