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Highlighted in The Biology of the Hawaiian Archipelago

Divergent evolutionary histories of DNA markers in a Hawaiian population of the coral Montipora capitata

, , , , , , , ,
1 Hawai’i Institute of Marine Biology, Kaneohe, Hawaii, United States of America
2 Department of Biological Sciences, University of Rhode Island, Kingston, Rhode Island, United States of America
3 Department of Marine and Coastal Sciences, Rutgers University, New Brunswick, New Jersey, United States of America
4 Department of Ecology, Evolution, and Natural Resources, Rutgers University, New Brunswick, New Jersey, United States of America
5 Marine Biology Department, University of Haifa, Haifa, Israel
6 Department of Earth and Planetary Sciences, Rutgers University, Piscataway, New Jersey, United States of America
DOI
10.7287/peerj.preprints.2896v1
Published
Accepted
Subject Areas
Ecology, Evolutionary Studies, Marine Biology
Keywords
genomics, sperm bundle DNA, coral colonies
Copyright
© 2017 Putnam et al.
Licence
This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.
Cite this article
Putnam H, Adams D, Zelzion E, Wagner N, Qiu H, Mass T, Falkowski P, Gates R, Bhattacharya D. 2017. Divergent evolutionary histories of DNA markers in a Hawaiian population of the coral Montipora capitata. PeerJ Preprints 5:e2896v1

Abstract

We investigated intra and inter-colony sequence variation in a population of the dominant Hawaiian coral Montipora capitata by analyzing marker gene and genomic data. Ribosomal ITS1 regions showed evidence of a reticulate history among the colonies, suggesting incomplete rDNA repeat homogenization. Analysis of the mitochondrial genome identified a major (M. capitata) and a minor (M. flabellata) haplotype in single polyp-derived sperm bundle DNA with some colonies containing 2-3 different mtDNA haplotypes. In contrast, Pax-C and newly identified single-copy nuclear genes showed either no sequence differences or minor variations in SNP frequencies segregating among the colonies. Our data suggest past mitochondrial introgression in M. capitata, whereas nuclear single-copy loci show limited variation, highlighting the divergent evolutionary histories of these coral DNA markers.

Author Comment

This is a submission to PeerJ for review.

Supplemental Information

Results of the NeighborNet analysis of the MTC data with the phi test result shown

The colony number demarcation and support values are the same as in Figure 2C.

DOI: 10.7287/peerj.preprints.2896v1/supp-1

Supplemental File 1

ITS alignment in fasta format

DOI: 10.7287/peerj.preprints.2896v1/supp-2

Supplemental File 2

MTC alignment in fasta format.

DOI: 10.7287/peerj.preprints.2896v1/supp-3

Supplemental File 3

Pax-C alignment in fasta format.

DOI: 10.7287/peerj.preprints.2896v1/supp-4

Additional Information

Competing Interests

The authors declare that they have no competing interests.

Author Contributions

Hollie Putnam conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Diane Adams conceived and designed the experiments, performed the experiments, contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Ehud Zelzion analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Nicole Wagner performed the experiments, contributed reagents/materials/analysis tools.

Huan Qiu analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Tali Mass performed the experiments.

Paul Falkowski reviewed drafts of the paper.

Ruth Gates reviewed drafts of the paper, logistical support critical for making collections.

Debashish Bhattacharya conceived and designed the experiments, analyzed the data, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Field Study Permissions

The following information was supplied relating to field study approvals (i.e., approving body and any reference numbers):

M. capitata corals were collected on June 2015 (Special Activity Permit 2015-17) from Kāneohe Bay, O’ahu Hawai’i

DNA Deposition

The following information was supplied regarding the deposition of DNA sequences:

The genomic data created for this project are available under the NCBI BioProject PRJNA339779.

Data Deposition

The following information was supplied regarding data availability:

NCBI BioProject PRJNA339779: https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA339779

Funding

This work was made possible by grants from the National Science Foundation EF-1416785 awarded to P.G.F., T.M. and D.B, OCE-PRF 1323822 to H.M.P., and Hawaii EPSCoR EPS-0903833. Funding was also provided by the Paul G. Allen Family Foundation to R.D.G. and by the US-Israel Binational Science Foundation (BSF-2014035) to D.K.A. and T.M. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

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Divergent evolutionary histories of DNA markers in a Hawaiian population of the coral Montipora capitata
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