Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx

Eli Meyer; Galina V Aglyamova; Shi Wang; Jade Buchanan-Carter; David Abrego; John K Colbourne; Bette L Willis; Mikhail V Matz

doi:10.1186/1471-2164-10-219

Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx

Eli Meyer, Galina V Aglyamova, Shi Wang, Jade Buchanan-Carter, David Abrego, John K Colbourne, Bette L Willis, Mikhail V Matz

Biosciences

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Abstract

New methods are needed for genomic-scale analysis of emerging model organisms that exemplify important biological questions but lack fully sequenced genomes. For example, there is an urgent need to understand the potential for corals to adapt to climate change, but few molecular resources are available for studying these processes in reef-building corals. To facilitate genomics studies in corals and other non-model systems, we describe methods for transcriptome sequencing using 454, as well as strategies for assembling a useful catalog of genes from the output. We have applied these methods to sequence the transcriptome of planulae larvae from the coral Acropora millepora.

Original language	English
Article number	219
Journal	BMC Genomics
Volume	10
DOIs	https://doi.org/10.1186/1471-2164-10-219
Publication status	Published - 12 May 2009

Keywords

Animals
Anthozoa
Cluster Analysis
Computational Biology
Contig Mapping
Gene Expression Profiling
Gene Library
Genomics
Polymorphism, Single Nucleotide
Sequence Analysis, DNA

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1186/1471-2164-10-219

Meyer_et_al_Sequencing_de_novo_analysis_BMC_Genomics_2009
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Checked July 2015
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Cite this

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title = "Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx",

abstract = "New methods are needed for genomic-scale analysis of emerging model organisms that exemplify important biological questions but lack fully sequenced genomes. For example, there is an urgent need to understand the potential for corals to adapt to climate change, but few molecular resources are available for studying these processes in reef-building corals. To facilitate genomics studies in corals and other non-model systems, we describe methods for transcriptome sequencing using 454, as well as strategies for assembling a useful catalog of genes from the output. We have applied these methods to sequence the transcriptome of planulae larvae from the coral Acropora millepora.",

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AU - Meyer, Eli

AU - Aglyamova, Galina V

AU - Wang, Shi

AU - Buchanan-Carter, Jade

AU - Abrego, David

AU - Colbourne, John K

AU - Willis, Bette L

AU - Matz, Mikhail V

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Y1 - 2009/5/12

N2 - New methods are needed for genomic-scale analysis of emerging model organisms that exemplify important biological questions but lack fully sequenced genomes. For example, there is an urgent need to understand the potential for corals to adapt to climate change, but few molecular resources are available for studying these processes in reef-building corals. To facilitate genomics studies in corals and other non-model systems, we describe methods for transcriptome sequencing using 454, as well as strategies for assembling a useful catalog of genes from the output. We have applied these methods to sequence the transcriptome of planulae larvae from the coral Acropora millepora.

AB - New methods are needed for genomic-scale analysis of emerging model organisms that exemplify important biological questions but lack fully sequenced genomes. For example, there is an urgent need to understand the potential for corals to adapt to climate change, but few molecular resources are available for studying these processes in reef-building corals. To facilitate genomics studies in corals and other non-model systems, we describe methods for transcriptome sequencing using 454, as well as strategies for assembling a useful catalog of genes from the output. We have applied these methods to sequence the transcriptome of planulae larvae from the coral Acropora millepora.

KW - Animals

KW - Anthozoa

KW - Cluster Analysis

KW - Computational Biology

KW - Contig Mapping

KW - Gene Expression Profiling

KW - Gene Library

KW - Genomics

KW - Polymorphism, Single Nucleotide

KW - Sequence Analysis, DNA

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DO - 10.1186/1471-2164-10-219

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SN - 1471-2164

VL - 10

JO - BMC Genomics

JF - BMC Genomics

M1 - 219

ER -

Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx

Abstract

Keywords

UN SDGs

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