Development and characterization of microsatellite markers in two agarophyte species, Gracilaria birdiae and Gracilaria caudata (Gracilariaceae, Rhodophyta), using next-generation sequencing

The two red algal species, Gracilaria birdiae Plastino and E.C. Oliveira and Gracilaria caudata J. Agardh, are the most important natural sources of agar in Brazil. Using the 454 sequencing system, we identified 464 and 487 perfect microsatellite loci in 6908 and 9602 sequences/contigs from G. birdi...

Full description

Saved in:
Bibliographic Details
Published in:Journal of applied phycology 2016-02, Vol.28 (1), p.653-662
Main Authors: Ayres-Ostrock, L. M, Mauger, S, Plastino, E. M, Oliveira, M. C, Valero, M, Destombe, C
Format: Article
Language:English
Subjects:
agar
alleles
Biomedical and Life Sciences
breeding
Caudata
coasts
Ecology
Freshwater & Marine Ecology
genetic markers
genetic variation
genotype
Gracilaria birdiae
Gracilaria caudata
Gracilariaceae
high-throughput nucleotide sequencing
Life Sciences
loci
mating systems
microsatellite repeats
Plant Physiology
Plant Sciences
Rhodophyta
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:The two red algal species, Gracilaria birdiae Plastino and E.C. Oliveira and Gracilaria caudata J. Agardh, are the most important natural sources of agar in Brazil. Using the 454 sequencing system, we identified 464 and 487 perfect microsatellite loci in 6908 and 9602 sequences/contigs from G. birdiae and G. caudata, respectively. After a conservative removal of potentially problematic loci, 144 loci were tested (72 from each species). A total of 25 polymorphic microsatellite loci were defined (13 loci for G. birdiae and 17 loci for G. caudata, including 5 loci common to both species). The five microsatellite loci that cross-amplified in both species showed species-specific differences in allele size. Polymorphic microsatellite loci were used to assess the genetic diversity of both species in their main harvest and cultivation areas on the Brazilian coast. Gene diversity was similar in G. birdiae and G. caudata. However, significant heterozygote deficiency was observed in G. birdiae, whereas heterozygote excess occurred in G. caudata, suggesting that these two related species differ in their mating system. These results also raised new questions on their biology in the field and on their patterns of genetic structure across their geographical ranges. In addition, the 20 loci developed in this study proved successful in identifying each individual in the field as a unique multilocus genotype, and will be useful for studying lineage sorting, breeding programs, or conservation issues.
ISSN:0921-8971
1573-5176
DOI:10.1007/s10811-015-0592-7