Rice genetic diversity at farm and village levels and genetic structure of local varieties reveal need for in situ conservation

The objective of this research was to determine the genetic diversity and population structure of natural populations of two rare wild species of Asian Vigna (Phaseoleae, Fabaceae), Vigna exilis Tateishi & Maxted and Vigna grandiflora (Prain) Tateishi & Maxted, from Thailand. Employing 21 simple sequence repeat markers, 107 and 85 individuals from seven and five natural populations of V. exilis and V. grandiflora, respectively, were analyzed. In total, the markers detected 196 alleles for V. exilis and 219 alleles for V. grandiflora. Vigna exilis populations showed lower average values in number of alleles, allelic richness, observed heterozygosity, gene diversity, and outcrossing rate than V. grandiflora populations, namely 58.00% versus 114.60%, 51.96% versus 74.80%, 0.02% versus 0.18%, 0.40% versus 0.66%, and 3.24% versus 17.41%, respectively. Pairwise FST among populations demonstrated that V. exilis was much more differentiated than V. grandiflora. Analysis of molecular variance revealed that 41.83% and 15.06% of total variation resided among the populations of V. exilis and V. grandiflora, respectively. Seven and two genetic clusters were detected for V. grandiflora and V. exilis by STRUCTURE analysis. Our findings suggest that different strategies are required for in situ conservation of the two species. All V. exilis populations, or as many as possible, should be conserved to protect genetic resources of this species, while a few V. grandiflora populations can capture the majority of its genetic variation.

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The original features of rice (Oryza sativa L.) genetic diversity and the importance of within-variety diversity in the highlands of Madagascar build a strong case for in situ conservation

Genetic Resources and Crop Evolution ◽

10.1007/s10722-012-9837-3 ◽

2012 ◽

Vol 60 (1) ◽

pp. 311-323 ◽

Cited By ~ 15

Author(s):

Tendro Radanielina ◽

Alain Ramanantsoanirina ◽

Louis-Marie Raboin ◽

Julien Frouin ◽

Xavier Perrier ◽

...

Keyword(s):

Genetic Diversity ◽

Oryza Sativa ◽

Oryza Sativa L ◽

In Situ Conservation ◽

Strong Case

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The In Situ Conservation of Rice Plant Genetic Diversity: A Case Study from a Philippine Barangay

Agriculture and Human Values ◽

10.1007/s10460-005-3397-5 ◽

2005 ◽

Vol 22 (4) ◽

pp. 421-434 ◽

Cited By ~ 10

Author(s):

David Carpenter

Keyword(s):

Genetic Diversity ◽

Rice Plant ◽

In Situ Conservation

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Genetic structure and diversity in Sorghum bicolor (L.) Moench landraces from marginal sorghum production lands in Senegal, based on SSR markers

Journal of Plant Breeding and Genetics ◽

10.33687/pbg.007.03.3204 ◽

2020 ◽

Vol 7 (3) ◽

pp. 134-144

Author(s):

Amy Bodian ◽

Bassiaka Ouattara ◽

Awa Sarr ◽

Boubacar Gano ◽

Mbaye-Ndoye Sall ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Structure ◽

Production Systems ◽

Classification Model ◽

Germplasm Management ◽

Genetic Diversity And Structure ◽

Food And Feed ◽

Sorghum Production ◽

In Situ Management

Data on sorghum genetic diversity in Senegal are missing despite its importance in the food and feed in the country. In order to contribute to the sustainable in situ management of sorghum germplasm, we investigated its genetic diversity and structure in its marginal production areas. Investigations were focused on Thiès, Diourbel and Kédougou regions where sorghum landraces have been less investigated and genetic information on landraces is unknown. A total of 148 sorghum accessions representative of landraces used in production systems have been sampled and analyzed with 30 microsatellite markers. A total of 138 alleles have been recorded. The number of alleles per locus varied from 3 (7 loci) to 8 (3 loci). The observed heterozygosity varied from 0 to 0.62. The low genetic distance (0.12) was recorded between Thiès and Diourbel populations and the highest distance (0.22) between Thiès and Kédougou populations. Dendrogram obtained according to Neighbour joining classification model allowed the classification of sorghum accessions into three main groups. The Genetic structure is not function to the regions indicating that landraces are not specific to a region. The results are a first step toward the sustainable in situ management of genetic resources. Data on the whole range of existing diversity of sorghum in Senegal is an important key for its germplasm management; so, the genotyping must be extended to accessions from the whole country.

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Designing conservation strategies to preserve the genetic diversity of Astragalus edulis Bunge, an endangered species from western Mediterranean region

10.7287/peerj.preprints.1496v1 ◽

2015 ◽

Author(s):

Julio Peñas ◽

Sara Barrios ◽

Javier Bobo-Pinilla ◽

Juan Lorite ◽

M. Montserrat Martínez-Ortega

Keyword(s):

Genetic Diversity ◽

Iberian Peninsula ◽

Mediterranean Region ◽

In Situ Conservation ◽

Western Mediterranean ◽

Ex Situ ◽

Conservation Strategies ◽

Distribution Area ◽

Ecological Data

Astragalus edulis (Fabaceae) is an endangered annual species from western Mediterranean region that colonized SE Iberian Peninsula, NE and SW Morocco, and the easternmost Macaronesian islands (Lanzarote and Fuerteventura). Although in Spain some conservation measures have been adopted, it is still necessary to develop an appropriate management plan to preserve genetic diversity across the entire distribution area of the species. Our main objective was to use population genetics as well as ecological and phylogeographic data to select Relevant Genetic Units for Conservation (RGUCs) as the first step in designing conservation plans for A. edulis. We identified six RGUCs for in situ conservation, based on estimations of population genetic structure and probabilities of the loss of rare alleles. Additionally, further population parameters, i.e. occupation area, population size, vulnerability, legal status of the population areas, and the historical haplotype distribution, were considered in order to establish which populations deserve conservation priority. Three populations from the Iberian Peninsula, two from Morocco, and one from the Canary Islands represent the total genetic diversity of the species and the rarest allelic variation. Ex situ conservation is recommended to complement the preservation of A. edulis, given that effective in situ population protection is not feasible in all cases. The consideration of complementary phylogeographic and ecological data is useful for management efforts to preserve the evolutionary potential of the species.

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Designing conservation strategies to preserve the genetic diversity ofAstragalus edulisBunge, an endangered species from western Mediterranean region

PeerJ ◽

10.7717/peerj.1474 ◽

2016 ◽

Vol 4 ◽

pp. e1474 ◽

Cited By ~ 7

Author(s):

Julio Peñas ◽

Sara Barrios ◽

Javier Bobo-Pinilla ◽

Juan Lorite ◽

M. Montserrat Martínez-Ortega

Keyword(s):

Genetic Diversity ◽

Iberian Peninsula ◽

Mediterranean Region ◽

In Situ Conservation ◽

Western Mediterranean ◽

Ex Situ ◽

Conservation Strategies ◽

Distribution Area ◽

Ecological Data

Astragalus edulis(Fabaceae) is an endangered annual species from the western Mediterranean region that colonized the SE Iberian Peninsula, NE and SW Morocco, and the easternmost Macaronesian islands (Lanzarote and Fuerteventura). Although in Spain some conservation measures have been adopted, it is still necessary to develop an appropriate management plan to preserve genetic diversity across the entire distribution area of the species. Our main objective was to use population genetics as well as ecological and phylogeographic data to select Relevant Genetic Units for Conservation (RGUCs) as the first step in designing conservation plans forA. edulis. We identified six RGUCs for in situ conservation, based on estimations of population genetic structure and probabilities of loss of rare alleles. Additionally, further population parameters, i.e. occupation area, population size, vulnerability, legal status of the population areas, and the historical haplotype distribution, were considered in order to establish which populations deserve conservation priority. Three populations from the Iberian Peninsula, two from Morocco, and one from the Canary Islands represent the total genetic diversity of the species and the rarest allelic variation. Ex situ conservation is recommended to complement the preservation ofA. edulis, given that effective in situ population protection is not feasible in all cases. The consideration of complementary phylogeographic and ecological data is useful for management efforts to preserve the evolutionary potential of the species.

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CROP WILD RELATIVES OF KALININGRAD PROVINCE RECOMMENDED FOR IN SITU CONSERVATION

PROCEEDINGS ON APPLIED BOTANY GENETICS AND BREEDING ◽

10.30901/2227-8834-2019-4-32-43 ◽

2020 ◽

Vol 180 (4) ◽

pp. 32-43 ◽

Cited By ~ 1

Author(s):

L. Yu. Shipilina

Keyword(s):

Genetic Diversity ◽

Plant Species ◽

In Situ Conservation ◽

Crop Wild Relatives ◽

Wild Relatives ◽

Published Data ◽

Vulnerable Species ◽

Natural Habitats ◽

Herbarium Collections

Background. Preservation of the entire genetic diversity of the world’s flora is indispensable to the deployment of breeding practice aimed at development and improvement of the existing economically useful plant species and varieties. The in situ conservation approach is recognized as the topmost priority. Therefore, a study of crop wild relatives (CWR) in Kaliningrad Province appears vital to identify the most vulnerable species and enhance their in situ conservation.Materials and methods. Crop wild relatives occurring in Kaliningrad Province were the research target. The WIR and LE herbarium collections, published data, and results of VIR’s plant explorations undertaken in 1974 and 1983 served as the material for the research. Plant species included in the Red Data Books of Kaliningrad Province, Lithuania, Estonia, Poland, etc. were analyzed, and the data from open databases (GBIF, CWR, ILDIS, etc.) and AgroAtlas maps were employed. CWR requiring special conservation measures were identified.Results and conclusions. Kaliningrad Province, Russia, is home to 324 species of CWR. Natural habitats of the 6 most vulnerable plant species were mapped: Vicia dumetorum L., Trifolium rubens L., Chrisaspis spadiceum L., Elytrigia juncea (L.) Nevski, Phleum phleoides (L.) H. Karst., and Allium vineale L. These species fall under the 1st vulnerability category.

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