In-depth genetic diversity and population structure of endangered peruvian amazon rosewood germplasm using genotyping by sequencing (GBS) technology

Muhammad Azhar Nadeem, Stalin Juan Vasquez Guizado, Muhammad Qasim Shahid, Muhammad Amjad Nawaz, Ephrem Habyarimana, Sezai Ercisli, Fawad Ali, Tolga Karaköy, Muhammad Aasim, Rüstü Hatipoğlu, Juan Carlos Castro Gómez, Jorge Luis Marapara Del Aguila, Pedro Marcelino Adrianzén Julca, Esperanza Torre Canales, Seung Hwan Yang, Gyuhwa Chung, Faheem Shehzad Baloch

Research output: Contribution to journalArticlepeer-review

7 Scopus citations

Abstract

Research studies on conservative genetics of endangered plants are very important to establish the management plans for the conservation of biodiversity. Rosewood is an evergreen tree of the Amazon region and its essential oil has great acceptance in the medical and cosmetic industry. The present study aimed to explore the genetic diversity and population structure of 90 rosewood accessions collected from eight localities of Peruvian Amazon territory through DArTseq markers. A total of 7485 informative markers resulted from genotyping by sequencing (GBS) analysis were used for the molecular characterization of rosewood germplasm. Mean values of various calculated diversity parameters like observed number of alleles (1.962), the effective number of alleles (1.669), unbiased expected heterozygosity (0.411), and percent polymorphism (93.51%) over the entire germplasm showed the existence of a good level of genetic variations. Our results showed that the Mairiricay population was more diverse compared to the rest of the populations. Tamshiyacu-2 and Mairiricay-15 accessions were found genetically distinct accessions. The analysis of molecular variance (AMOVA) reflected maximum variations (75%) are due to differences within populations. The implemented clustering algorithms, i.e., STRUCTURE, neighbor-joining analysis and principal coordinate analysis (PCoA) separated the studied germplasm on the basis of their geographical locations. Diversity indices for STRUCTURE-based populations showed that subpopulation A is more diverse population than the rest of the populations, for such reason, individuals belonging to this subpopulation should be used for reintroduction or reinforcement plans of rosewood conservation. We envisage that molecular characterization of Peruvian rosewood germplasm with DArTseq markers will provide a platform for the conservation, management and restoration of endangered rosewood in upcoming years.

Original languageEnglish
Article number197
Pages (from-to)1-17
Number of pages17
JournalForests
Volume12
Issue number2
DOIs
StatePublished - Feb 2021

Keywords

  • Aniba rosaeodora
  • Dartseq
  • Germplasm characterization
  • Molecular markers
  • Population geneticsc

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