Genetic diversity and population structure of Bretschneidera sinensis, an endangered species

AbstractThe scalloped hammerhead shark Sphyrna lewini is an endangered species which expected to population declined worldwide including in Indonesia due to overexploited. However, there is a lack of information regarding recent population structure to promote proper management and conservation status in Indonesia. This study aimed to investigate the genetic diversity, population structure and connectivity of S. lewini population in Indonesia from three major sharks landing sites in Aceh (n= 41), Balikpapan (n= 30), Lombok (n= 29), and additional sequences retrieved from West Papua (n= 14) and Western Indian Ocean population (n= 65). Analyses of mitochondrial CO1 gene successfully identified a total of 179 sequences of S. lewini with an average 594 bp nucleotide with 40 polymorphic loci in 4 haplotypes for Indonesian population and 8 haplotypes for Western Indian Ocean. The overall values of genetic diversity in Indonesia was high (Hd= 0.7171; π= 0.0126), with the highest was in Aceh (Hd= 0.6683; π= 0.0198), and the lowest was in Papua (Hd= 0.1429; π= 0.0005), while in Western Indian Ocean the overall value was fairly low (Hd= 0.2322; π= 0.0010). The AMOVA and FST revealed three significant population subdivisions in Indonesia (FST= 0.4415; p < 0.001) with separated population for Aceh and West Papua, and a mixing population between Balikpapan and Lombok (FST= 0.044; p = 0.089), whereas relatively no significant differentiation within population in Western Indian Ocean (FST= −0.0131; p = 0.6011), and significant different level showed by Indonesian population compared with Western Indian Ocean population (FST= 0.7403; p < 0.001). The construction of haplotype network exhibited evidence of gene flow and haplotype sharing between populations. This result indicated a complex and limited connectivity population of S. lewini in Indonesia, and between Western Indian Ocean in regional scale which need co-management action across region.

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Genetic diversity and population structure assessment using molecular markers and SPAR approach in Illicium griffithii, a medicinally important endangered species of Northeast India

Journal of Genetic Engineering and Biotechnology ◽

10.1186/s43141-021-00211-5 ◽

2021 ◽

Vol 19 (1) ◽

Author(s):

Rajib Borah ◽

Atanu Bhattacharjee ◽

Satyawada Rama Rao ◽

Vineet Kumar ◽

Pradeep Sharma ◽

...

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Molecular Markers ◽

Endangered Species ◽

Genetic Differentiation ◽

Genetic Material ◽

Northeast India ◽

Market Potential ◽

Resolving Power ◽

Pharmaceutical Industries

Abstract Background Illicium griffithii is an aromatic medicinal tree species that has been listed in the IUCN Red List as an endangered species. Dried seed pods of I. griffithii have a good market potential in the spices and pharmaceutical industries. Fruits are the potential source of shikimic acid and used for the production of oseltamivir (a drug against bird flu). However, in recent years, unscientific harvesting and rampant exploitation of the species has caused a negative and adverse effect on its natural population. Proper knowledge of genetic diversity and population structure is crucial to understand the population dynamics, adaptation, and evolutionary pattern of a particular species for conservation. It was from this view point that the present study was undertaken so as to compare the various types of DNA-based molecular markers namely RAPD, ISSR, DAMD, and SCoT by their efficiency and SPAR approach to evaluate the genetic diversity of I. griffithii as well as to analyze population genetic structure for conservation purpose. Result A total of 250 discernible bands were generated with 246 bands (98.40 %) being polymorphic in nature. All the primers in combination gave a mean polymorphic information content (PIC) of 0.81 and Rp value (resolving power) of 4.32. Nei’s, Gst, and AMOVA analysis showed similar values of genetic differentiation among populations (Gst = 0.396, FST = 0.30, respectively), revealing a low level of genetic differentiation among the eight sampled populations. I. griffithii with an estimated gene flow value of Nm = 0.761 was significantly low among populations. Clustering pattern obtained with Bayesian structure and PCoA diagram revealed that intermixing of genetic material across populations is only possible when the populations lie close to each other. This is further validated with UPGMA clustering method where a positive correlation of genetic variability with geographical distance among closely related populations could be clearly seen. Conclusion The result aids in the identification, collection, and preservation of diverse germplasm of I. griffithii from Arunachal Pradesh and Meghalaya of Northeast India. This would further help in understanding the population structure and genetic diversity among other Illicium species in order to formulate effective conservation strategies for the improvement of this endangered taxa.

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