Highly differentiated population structure of a Mangrove species, Bruguiera gymnorhiza (Rhizophoraceae) revealed by one nuclear GapCp and one chloroplast intergenic spacer trnF-trnL

Sumiko Minobe, Shingo Fukui, Rumiko Saiki, Tadashi Kajita, Suchitra Changtragoon, Nor Aini Ab Shukor, A. Latiff, B. R. Ramesh, Osamu Koizumi, Tsuneyuki Yamazaki

    Research output: Contribution to journalArticle

    23 Citations (Scopus)

    Abstract

    To evaluate the genetic diversity of a mangrove species and clarify the genetic structure of its populations, we studied nucleotide polymorphism in two DNA regions of Bruguiera gymnorhiza collected from the southern islands of Japan, Thailand, Malaysia, Indonesia, Micronesia, and India. The two DNA sequences were the chloroplast (cp) intergenic spacer between trnL and trnF genes (ca. 300 bp), and a part (ca. 550 bp) of the nuclear gene coding for glyceraldehyde-3-phosphate dehydrogenase (GapCp). Little polymorphism was found within each of the three geographical regions, Pacific Ocean, Bay of Bengal and Arabian Sea. Throughout the vast regions east of the Malay peninsula including Indonesia, Thailand, Micronesia and the southern islands of Japan (Pacific Ocean), essentially only one haplotype (apart from variation in number of a T repeat) was present. A second haplotype was present on the western coast of Malay Peninsula and the eastern coast of India (Bay of Bengal). On the southwest of Malay Peninsula both of these haplotypes were present. Finally a third haplotype was found only on the western coast of India (Arabian Sea). When taken over all geographic populations, total nucleotide variation within the species was large (μ = 0.006, average of the two genes). Our results are consistent with the hypothesis that this low genetic diversity within any local population and differentiation between the different oceans or regions are caused by very low gene flow between each of the different oceans coupled with frequent fluctuation of population sizes due to the change in sea level. The significance of these results is discussed from evolutionary point of the mangrove forests.

    Original languageEnglish
    Pages (from-to)301-310
    Number of pages10
    JournalConservation Genetics
    Volume11
    Issue number1
    DOIs
    Publication statusPublished - Jan 2010

    Fingerprint

    Rhizophoraceae
    Bruguiera gymnorhiza
    Chloroplasts
    intergenic DNA
    chloroplast
    Oceans and Seas
    mangrove
    Malaysia
    population structure
    haplotypes
    chloroplasts
    Haplotypes
    Micronesia
    Bay of Bengal
    Pacific Ocean
    ocean
    India
    coasts
    Indonesia
    Population

    Keywords

    • Bruguiera gymnorhiza
    • Chloroplast DNA
    • GapCp
    • Intraspecific diversity
    • Mangrove conservation
    • Population structure

    ASJC Scopus subject areas

    • Ecology, Evolution, Behavior and Systematics
    • Genetics

    Cite this

    Highly differentiated population structure of a Mangrove species, Bruguiera gymnorhiza (Rhizophoraceae) revealed by one nuclear GapCp and one chloroplast intergenic spacer trnF-trnL. / Minobe, Sumiko; Fukui, Shingo; Saiki, Rumiko; Kajita, Tadashi; Changtragoon, Suchitra; Ab Shukor, Nor Aini; Latiff, A.; Ramesh, B. R.; Koizumi, Osamu; Yamazaki, Tsuneyuki.

    In: Conservation Genetics, Vol. 11, No. 1, 01.2010, p. 301-310.

    Research output: Contribution to journalArticle

    Minobe, S, Fukui, S, Saiki, R, Kajita, T, Changtragoon, S, Ab Shukor, NA, Latiff, A, Ramesh, BR, Koizumi, O & Yamazaki, T 2010, 'Highly differentiated population structure of a Mangrove species, Bruguiera gymnorhiza (Rhizophoraceae) revealed by one nuclear GapCp and one chloroplast intergenic spacer trnF-trnL', Conservation Genetics, vol. 11, no. 1, pp. 301-310. https://doi.org/10.1007/s10592-009-9806-3
    Minobe, Sumiko ; Fukui, Shingo ; Saiki, Rumiko ; Kajita, Tadashi ; Changtragoon, Suchitra ; Ab Shukor, Nor Aini ; Latiff, A. ; Ramesh, B. R. ; Koizumi, Osamu ; Yamazaki, Tsuneyuki. / Highly differentiated population structure of a Mangrove species, Bruguiera gymnorhiza (Rhizophoraceae) revealed by one nuclear GapCp and one chloroplast intergenic spacer trnF-trnL. In: Conservation Genetics. 2010 ; Vol. 11, No. 1. pp. 301-310.
    @article{a3ff1cba389842139246eaa2f08b2abb,
    title = "Highly differentiated population structure of a Mangrove species, Bruguiera gymnorhiza (Rhizophoraceae) revealed by one nuclear GapCp and one chloroplast intergenic spacer trnF-trnL",
    abstract = "To evaluate the genetic diversity of a mangrove species and clarify the genetic structure of its populations, we studied nucleotide polymorphism in two DNA regions of Bruguiera gymnorhiza collected from the southern islands of Japan, Thailand, Malaysia, Indonesia, Micronesia, and India. The two DNA sequences were the chloroplast (cp) intergenic spacer between trnL and trnF genes (ca. 300 bp), and a part (ca. 550 bp) of the nuclear gene coding for glyceraldehyde-3-phosphate dehydrogenase (GapCp). Little polymorphism was found within each of the three geographical regions, Pacific Ocean, Bay of Bengal and Arabian Sea. Throughout the vast regions east of the Malay peninsula including Indonesia, Thailand, Micronesia and the southern islands of Japan (Pacific Ocean), essentially only one haplotype (apart from variation in number of a T repeat) was present. A second haplotype was present on the western coast of Malay Peninsula and the eastern coast of India (Bay of Bengal). On the southwest of Malay Peninsula both of these haplotypes were present. Finally a third haplotype was found only on the western coast of India (Arabian Sea). When taken over all geographic populations, total nucleotide variation within the species was large (μ = 0.006, average of the two genes). Our results are consistent with the hypothesis that this low genetic diversity within any local population and differentiation between the different oceans or regions are caused by very low gene flow between each of the different oceans coupled with frequent fluctuation of population sizes due to the change in sea level. The significance of these results is discussed from evolutionary point of the mangrove forests.",
    keywords = "Bruguiera gymnorhiza, Chloroplast DNA, GapCp, Intraspecific diversity, Mangrove conservation, Population structure",
    author = "Sumiko Minobe and Shingo Fukui and Rumiko Saiki and Tadashi Kajita and Suchitra Changtragoon and {Ab Shukor}, {Nor Aini} and A. Latiff and Ramesh, {B. R.} and Osamu Koizumi and Tsuneyuki Yamazaki",
    year = "2010",
    month = "1",
    doi = "10.1007/s10592-009-9806-3",
    language = "English",
    volume = "11",
    pages = "301--310",
    journal = "Conservation Genetics",
    issn = "1566-0621",
    publisher = "Springer Netherlands",
    number = "1",

    }

    TY - JOUR

    T1 - Highly differentiated population structure of a Mangrove species, Bruguiera gymnorhiza (Rhizophoraceae) revealed by one nuclear GapCp and one chloroplast intergenic spacer trnF-trnL

    AU - Minobe, Sumiko

    AU - Fukui, Shingo

    AU - Saiki, Rumiko

    AU - Kajita, Tadashi

    AU - Changtragoon, Suchitra

    AU - Ab Shukor, Nor Aini

    AU - Latiff, A.

    AU - Ramesh, B. R.

    AU - Koizumi, Osamu

    AU - Yamazaki, Tsuneyuki

    PY - 2010/1

    Y1 - 2010/1

    N2 - To evaluate the genetic diversity of a mangrove species and clarify the genetic structure of its populations, we studied nucleotide polymorphism in two DNA regions of Bruguiera gymnorhiza collected from the southern islands of Japan, Thailand, Malaysia, Indonesia, Micronesia, and India. The two DNA sequences were the chloroplast (cp) intergenic spacer between trnL and trnF genes (ca. 300 bp), and a part (ca. 550 bp) of the nuclear gene coding for glyceraldehyde-3-phosphate dehydrogenase (GapCp). Little polymorphism was found within each of the three geographical regions, Pacific Ocean, Bay of Bengal and Arabian Sea. Throughout the vast regions east of the Malay peninsula including Indonesia, Thailand, Micronesia and the southern islands of Japan (Pacific Ocean), essentially only one haplotype (apart from variation in number of a T repeat) was present. A second haplotype was present on the western coast of Malay Peninsula and the eastern coast of India (Bay of Bengal). On the southwest of Malay Peninsula both of these haplotypes were present. Finally a third haplotype was found only on the western coast of India (Arabian Sea). When taken over all geographic populations, total nucleotide variation within the species was large (μ = 0.006, average of the two genes). Our results are consistent with the hypothesis that this low genetic diversity within any local population and differentiation between the different oceans or regions are caused by very low gene flow between each of the different oceans coupled with frequent fluctuation of population sizes due to the change in sea level. The significance of these results is discussed from evolutionary point of the mangrove forests.

    AB - To evaluate the genetic diversity of a mangrove species and clarify the genetic structure of its populations, we studied nucleotide polymorphism in two DNA regions of Bruguiera gymnorhiza collected from the southern islands of Japan, Thailand, Malaysia, Indonesia, Micronesia, and India. The two DNA sequences were the chloroplast (cp) intergenic spacer between trnL and trnF genes (ca. 300 bp), and a part (ca. 550 bp) of the nuclear gene coding for glyceraldehyde-3-phosphate dehydrogenase (GapCp). Little polymorphism was found within each of the three geographical regions, Pacific Ocean, Bay of Bengal and Arabian Sea. Throughout the vast regions east of the Malay peninsula including Indonesia, Thailand, Micronesia and the southern islands of Japan (Pacific Ocean), essentially only one haplotype (apart from variation in number of a T repeat) was present. A second haplotype was present on the western coast of Malay Peninsula and the eastern coast of India (Bay of Bengal). On the southwest of Malay Peninsula both of these haplotypes were present. Finally a third haplotype was found only on the western coast of India (Arabian Sea). When taken over all geographic populations, total nucleotide variation within the species was large (μ = 0.006, average of the two genes). Our results are consistent with the hypothesis that this low genetic diversity within any local population and differentiation between the different oceans or regions are caused by very low gene flow between each of the different oceans coupled with frequent fluctuation of population sizes due to the change in sea level. The significance of these results is discussed from evolutionary point of the mangrove forests.

    KW - Bruguiera gymnorhiza

    KW - Chloroplast DNA

    KW - GapCp

    KW - Intraspecific diversity

    KW - Mangrove conservation

    KW - Population structure

    UR - http://www.scopus.com/inward/record.url?scp=74749101118&partnerID=8YFLogxK

    UR - http://www.scopus.com/inward/citedby.url?scp=74749101118&partnerID=8YFLogxK

    U2 - 10.1007/s10592-009-9806-3

    DO - 10.1007/s10592-009-9806-3

    M3 - Article

    AN - SCOPUS:74749101118

    VL - 11

    SP - 301

    EP - 310

    JO - Conservation Genetics

    JF - Conservation Genetics

    SN - 1566-0621

    IS - 1

    ER -