Sampling the skin transcriptome of the North Atlantic right whale

Jessalyn L. Ierardi, Annalaura Mancia, JoEllyn M McMillan, Mats L. Lundqvist, Tracy A. Romano, John Pierce Wise, Gregory W. Warr, Robert W. Chapman

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

As an initial step in defining the transcriptome of the North Atlantic right whale (Eubalaena glacialis) and developing functional genomic tools to study right whale health at the molecular physiological level, a cDNA library has been constructed from a skin biopsy. 2496 randomly selected clones (expressed sequence tags, ESTs) have been sequenced, and genes identified as important in the response to stress and immune challenges have been cloned by targeted RT-PCR from skin cDNA. The analysis of the EST collection (archived at www.marinegenomics.org and GenBank) showed a 34.79% redundancy, yielding 1578 unigenes and 27 potential microsatellite markers. 96 genes were cloned by targeted PCR; moreover, 52 of these genes are stress and immune function related. A Gene Ontology analysis of the unigene collection indicates that the skin is a rich source of expressed genes with diverse functions, suggesting an important role in multiple physiological processes including those related to immunity and stress response.

Original languageEnglish (US)
Pages (from-to)154-158
Number of pages5
JournalComparative Biochemistry and Physiology - Part D: Genomics and Proteomics
Volume4
Issue number3
DOIs
StatePublished - Sep 1 2009

Fingerprint

Whales
Transcriptome
Skin
Genes
Sampling
Expressed Sequence Tags
Physiological Phenomena
Polymerase Chain Reaction
Gene Ontology
Nucleic Acid Databases
Gene Library
Microsatellite Repeats
Biopsy
Immunity
Complementary DNA
Clone Cells
Redundancy
Ontology
Health

Keywords

  • Eubalaena glacialis
  • Expressed Sequence Tags (ESTs)
  • Immune response
  • Microsatellite
  • North Atlantic right whale
  • Skin

ASJC Scopus subject areas

  • Biochemistry
  • Physiology
  • Molecular Biology
  • Genetics

Cite this

Sampling the skin transcriptome of the North Atlantic right whale. / Ierardi, Jessalyn L.; Mancia, Annalaura; McMillan, JoEllyn M; Lundqvist, Mats L.; Romano, Tracy A.; Wise, John Pierce; Warr, Gregory W.; Chapman, Robert W.

In: Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics, Vol. 4, No. 3, 01.09.2009, p. 154-158.

Research output: Contribution to journalArticle

Ierardi, Jessalyn L. ; Mancia, Annalaura ; McMillan, JoEllyn M ; Lundqvist, Mats L. ; Romano, Tracy A. ; Wise, John Pierce ; Warr, Gregory W. ; Chapman, Robert W. / Sampling the skin transcriptome of the North Atlantic right whale. In: Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics. 2009 ; Vol. 4, No. 3. pp. 154-158.
@article{c2569f6248e8443dbeb614c21e07e1da,
title = "Sampling the skin transcriptome of the North Atlantic right whale",
abstract = "As an initial step in defining the transcriptome of the North Atlantic right whale (Eubalaena glacialis) and developing functional genomic tools to study right whale health at the molecular physiological level, a cDNA library has been constructed from a skin biopsy. 2496 randomly selected clones (expressed sequence tags, ESTs) have been sequenced, and genes identified as important in the response to stress and immune challenges have been cloned by targeted RT-PCR from skin cDNA. The analysis of the EST collection (archived at www.marinegenomics.org and GenBank) showed a 34.79{\%} redundancy, yielding 1578 unigenes and 27 potential microsatellite markers. 96 genes were cloned by targeted PCR; moreover, 52 of these genes are stress and immune function related. A Gene Ontology analysis of the unigene collection indicates that the skin is a rich source of expressed genes with diverse functions, suggesting an important role in multiple physiological processes including those related to immunity and stress response.",
keywords = "Eubalaena glacialis, Expressed Sequence Tags (ESTs), Immune response, Microsatellite, North Atlantic right whale, Skin",
author = "Ierardi, {Jessalyn L.} and Annalaura Mancia and McMillan, {JoEllyn M} and Lundqvist, {Mats L.} and Romano, {Tracy A.} and Wise, {John Pierce} and Warr, {Gregory W.} and Chapman, {Robert W.}",
year = "2009",
month = "9",
day = "1",
doi = "10.1016/j.cbd.2009.01.004",
language = "English (US)",
volume = "4",
pages = "154--158",
journal = "Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics",
issn = "1744-117X",
publisher = "Elsevier Inc.",
number = "3",

}

TY - JOUR

T1 - Sampling the skin transcriptome of the North Atlantic right whale

AU - Ierardi, Jessalyn L.

AU - Mancia, Annalaura

AU - McMillan, JoEllyn M

AU - Lundqvist, Mats L.

AU - Romano, Tracy A.

AU - Wise, John Pierce

AU - Warr, Gregory W.

AU - Chapman, Robert W.

PY - 2009/9/1

Y1 - 2009/9/1

N2 - As an initial step in defining the transcriptome of the North Atlantic right whale (Eubalaena glacialis) and developing functional genomic tools to study right whale health at the molecular physiological level, a cDNA library has been constructed from a skin biopsy. 2496 randomly selected clones (expressed sequence tags, ESTs) have been sequenced, and genes identified as important in the response to stress and immune challenges have been cloned by targeted RT-PCR from skin cDNA. The analysis of the EST collection (archived at www.marinegenomics.org and GenBank) showed a 34.79% redundancy, yielding 1578 unigenes and 27 potential microsatellite markers. 96 genes were cloned by targeted PCR; moreover, 52 of these genes are stress and immune function related. A Gene Ontology analysis of the unigene collection indicates that the skin is a rich source of expressed genes with diverse functions, suggesting an important role in multiple physiological processes including those related to immunity and stress response.

AB - As an initial step in defining the transcriptome of the North Atlantic right whale (Eubalaena glacialis) and developing functional genomic tools to study right whale health at the molecular physiological level, a cDNA library has been constructed from a skin biopsy. 2496 randomly selected clones (expressed sequence tags, ESTs) have been sequenced, and genes identified as important in the response to stress and immune challenges have been cloned by targeted RT-PCR from skin cDNA. The analysis of the EST collection (archived at www.marinegenomics.org and GenBank) showed a 34.79% redundancy, yielding 1578 unigenes and 27 potential microsatellite markers. 96 genes were cloned by targeted PCR; moreover, 52 of these genes are stress and immune function related. A Gene Ontology analysis of the unigene collection indicates that the skin is a rich source of expressed genes with diverse functions, suggesting an important role in multiple physiological processes including those related to immunity and stress response.

KW - Eubalaena glacialis

KW - Expressed Sequence Tags (ESTs)

KW - Immune response

KW - Microsatellite

KW - North Atlantic right whale

KW - Skin

UR - http://www.scopus.com/inward/record.url?scp=67650152194&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=67650152194&partnerID=8YFLogxK

U2 - 10.1016/j.cbd.2009.01.004

DO - 10.1016/j.cbd.2009.01.004

M3 - Article

VL - 4

SP - 154

EP - 158

JO - Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics

JF - Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics

SN - 1744-117X

IS - 3

ER -