Simple se×uence repeats (SSR) profiling of cultivated 'limau purut' in Malaysia

G. P S Elcy, Y. J. Park, M. C. Mahani, Normah Mohd. Noor

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

In Malaysia, 'Limau Purut' (Citrus hystrix) is mainly grown in home gardens and nurseries. There is potential for C. hystrix to be grown commercially but there is little genetic information to assist in selection of cultivars. In this study, the genetic variability and genetic relatedness among plants cultivated in the different states of peninsular Malaysia were assessed using simple se×uence repeat (SSRs). Thirty pairs of SSR primers derived from C. unshiu were screened and 20 SSR primer pairs were utilized to assess genetic variability and relatedness among 100 samples. The percentage of SSR transferability from C. unshiu to C. hystrix was 66.67% which indicated that the primer se×uences flanking simple se×uence repeats were conserved between these two Citrus species. Low allelic diversity was found with an average of 2.9 alleles per locus. Polymorphic information content (PIC) ranged from 0 to 0.710. Based on UPGMA clustering analysis, two distinct groups were observed with mean genetic distance of 0.228. Samples collected from the citrus germplasm collection at MARDI clustered separately from the remaining samples collected from orchards, indicating derivation from possibly two distinct cultivars. Low genetic variability within each group was probably due to vegetative propagation and/or inability to detect differences among samples using these primers. Correlation of molecular markers with phenotypic characteristics will be useful in selection of cultivars for commercial cultivation and conservation purposes.

Original languageEnglish
Title of host publicationActa Horticulturae
PublisherInternational Society for Horticultural Science
Pages77-84
Number of pages8
Volume1024
ISBN (Print)9789462610101
Publication statusPublished - 12 Mar 2014

Publication series

NameActa Horticulturae
Volume1024
ISSN (Print)05677572

Fingerprint

Citrus hystrix
Malaysia
genetic variation
genetic relationships
Citrus
cultivars
sampling
home gardens
vegetative propagation
germplasm conservation
genetic distance
orchards
alleles
loci
genetic markers

Keywords

  • Genetic relatedness
  • Genetic variability
  • Microsatellites
  • Probability of identity

ASJC Scopus subject areas

  • Horticulture

Cite this

Elcy, G. P. S., Park, Y. J., Mahani, M. C., & Mohd. Noor, N. (2014). Simple se×uence repeats (SSR) profiling of cultivated 'limau purut' in Malaysia. In Acta Horticulturae (Vol. 1024, pp. 77-84). (Acta Horticulturae; Vol. 1024). International Society for Horticultural Science.

Simple se×uence repeats (SSR) profiling of cultivated 'limau purut' in Malaysia. / Elcy, G. P S; Park, Y. J.; Mahani, M. C.; Mohd. Noor, Normah.

Acta Horticulturae. Vol. 1024 International Society for Horticultural Science, 2014. p. 77-84 (Acta Horticulturae; Vol. 1024).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Elcy, GPS, Park, YJ, Mahani, MC & Mohd. Noor, N 2014, Simple se×uence repeats (SSR) profiling of cultivated 'limau purut' in Malaysia. in Acta Horticulturae. vol. 1024, Acta Horticulturae, vol. 1024, International Society for Horticultural Science, pp. 77-84.
Elcy GPS, Park YJ, Mahani MC, Mohd. Noor N. Simple se×uence repeats (SSR) profiling of cultivated 'limau purut' in Malaysia. In Acta Horticulturae. Vol. 1024. International Society for Horticultural Science. 2014. p. 77-84. (Acta Horticulturae).
Elcy, G. P S ; Park, Y. J. ; Mahani, M. C. ; Mohd. Noor, Normah. / Simple se×uence repeats (SSR) profiling of cultivated 'limau purut' in Malaysia. Acta Horticulturae. Vol. 1024 International Society for Horticultural Science, 2014. pp. 77-84 (Acta Horticulturae).
@inproceedings{78d84d10d58c4fa08dacfb62eccb2adc,
title = "Simple se×uence repeats (SSR) profiling of cultivated 'limau purut' in Malaysia",
abstract = "In Malaysia, 'Limau Purut' (Citrus hystrix) is mainly grown in home gardens and nurseries. There is potential for C. hystrix to be grown commercially but there is little genetic information to assist in selection of cultivars. In this study, the genetic variability and genetic relatedness among plants cultivated in the different states of peninsular Malaysia were assessed using simple se×uence repeat (SSRs). Thirty pairs of SSR primers derived from C. unshiu were screened and 20 SSR primer pairs were utilized to assess genetic variability and relatedness among 100 samples. The percentage of SSR transferability from C. unshiu to C. hystrix was 66.67{\%} which indicated that the primer se×uences flanking simple se×uence repeats were conserved between these two Citrus species. Low allelic diversity was found with an average of 2.9 alleles per locus. Polymorphic information content (PIC) ranged from 0 to 0.710. Based on UPGMA clustering analysis, two distinct groups were observed with mean genetic distance of 0.228. Samples collected from the citrus germplasm collection at MARDI clustered separately from the remaining samples collected from orchards, indicating derivation from possibly two distinct cultivars. Low genetic variability within each group was probably due to vegetative propagation and/or inability to detect differences among samples using these primers. Correlation of molecular markers with phenotypic characteristics will be useful in selection of cultivars for commercial cultivation and conservation purposes.",
keywords = "Genetic relatedness, Genetic variability, Microsatellites, Probability of identity",
author = "Elcy, {G. P S} and Park, {Y. J.} and Mahani, {M. C.} and {Mohd. Noor}, Normah",
year = "2014",
month = "3",
day = "12",
language = "English",
isbn = "9789462610101",
volume = "1024",
series = "Acta Horticulturae",
publisher = "International Society for Horticultural Science",
pages = "77--84",
booktitle = "Acta Horticulturae",

}

TY - GEN

T1 - Simple se×uence repeats (SSR) profiling of cultivated 'limau purut' in Malaysia

AU - Elcy, G. P S

AU - Park, Y. J.

AU - Mahani, M. C.

AU - Mohd. Noor, Normah

PY - 2014/3/12

Y1 - 2014/3/12

N2 - In Malaysia, 'Limau Purut' (Citrus hystrix) is mainly grown in home gardens and nurseries. There is potential for C. hystrix to be grown commercially but there is little genetic information to assist in selection of cultivars. In this study, the genetic variability and genetic relatedness among plants cultivated in the different states of peninsular Malaysia were assessed using simple se×uence repeat (SSRs). Thirty pairs of SSR primers derived from C. unshiu were screened and 20 SSR primer pairs were utilized to assess genetic variability and relatedness among 100 samples. The percentage of SSR transferability from C. unshiu to C. hystrix was 66.67% which indicated that the primer se×uences flanking simple se×uence repeats were conserved between these two Citrus species. Low allelic diversity was found with an average of 2.9 alleles per locus. Polymorphic information content (PIC) ranged from 0 to 0.710. Based on UPGMA clustering analysis, two distinct groups were observed with mean genetic distance of 0.228. Samples collected from the citrus germplasm collection at MARDI clustered separately from the remaining samples collected from orchards, indicating derivation from possibly two distinct cultivars. Low genetic variability within each group was probably due to vegetative propagation and/or inability to detect differences among samples using these primers. Correlation of molecular markers with phenotypic characteristics will be useful in selection of cultivars for commercial cultivation and conservation purposes.

AB - In Malaysia, 'Limau Purut' (Citrus hystrix) is mainly grown in home gardens and nurseries. There is potential for C. hystrix to be grown commercially but there is little genetic information to assist in selection of cultivars. In this study, the genetic variability and genetic relatedness among plants cultivated in the different states of peninsular Malaysia were assessed using simple se×uence repeat (SSRs). Thirty pairs of SSR primers derived from C. unshiu were screened and 20 SSR primer pairs were utilized to assess genetic variability and relatedness among 100 samples. The percentage of SSR transferability from C. unshiu to C. hystrix was 66.67% which indicated that the primer se×uences flanking simple se×uence repeats were conserved between these two Citrus species. Low allelic diversity was found with an average of 2.9 alleles per locus. Polymorphic information content (PIC) ranged from 0 to 0.710. Based on UPGMA clustering analysis, two distinct groups were observed with mean genetic distance of 0.228. Samples collected from the citrus germplasm collection at MARDI clustered separately from the remaining samples collected from orchards, indicating derivation from possibly two distinct cultivars. Low genetic variability within each group was probably due to vegetative propagation and/or inability to detect differences among samples using these primers. Correlation of molecular markers with phenotypic characteristics will be useful in selection of cultivars for commercial cultivation and conservation purposes.

KW - Genetic relatedness

KW - Genetic variability

KW - Microsatellites

KW - Probability of identity

UR - http://www.scopus.com/inward/record.url?scp=84899574983&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84899574983&partnerID=8YFLogxK

M3 - Conference contribution

SN - 9789462610101

VL - 1024

T3 - Acta Horticulturae

SP - 77

EP - 84

BT - Acta Horticulturae

PB - International Society for Horticultural Science

ER -