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Molecular evolution and nucleotide diversity of nuclear plastid phosphoglycerate kinase (PGK) gene in Triticeae (Poaceae).
Gene. 2014 Jan 01; 533(1):142-8.GENE

Abstract

Levels of nucleotide divergence provide key evidence in the evolution of polyploids. The nucleotide diversity of 226 sequences of pgk1 gene in Triticeae species was characterized. Phylogenetic analyses based on the pgk1 gene were carried out to determine the diploid origin of polyploids within the tribe in relation to their A(u), B, D, St, Ns, P, and H haplomes. Sequences from the Ns genome represented the highest nucleotide diversity values for both polyploid and diploid species with π=0.03343 and θ=0.03536 for polyploid Ns genome sequences and π=0.03886 and θ=0.03886 for diploid Psathyrostachys sequences, while Triticum urartu represented the lowest diversity among diploid species at π=0.0011 and θ=0.0011. Nucleotide variation of diploid Aegilops speltoides (π=0.2441, presumed the B genome donor of Triticum species) is five times higher than that (π=0.00483) of B genome in polyploid species. Significant negative Tajima's D values for the St, A(u), and D genomes along with high rates of polymorphisms and low sequence diversity were observed. Origins of the A(u), B, and D genomes were linked to T. urartu, A. speltoides, and A. tauschii, respectively. Putative St genome donor was Pseudoroegneria, while Ns and P donors were Psathyrostachys and Agropyron. H genome diploid donor is Hordeum.

Authors+Show Affiliations

Biology Department, Saint Mary's University, Halifax, NS, Canada, B3H 3C3.No affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

24120623

Citation

Adderley, Shawn, and Genlou Sun. "Molecular Evolution and Nucleotide Diversity of Nuclear Plastid Phosphoglycerate Kinase (PGK) Gene in Triticeae (Poaceae)." Gene, vol. 533, no. 1, 2014, pp. 142-8.
Adderley S, Sun G. Molecular evolution and nucleotide diversity of nuclear plastid phosphoglycerate kinase (PGK) gene in Triticeae (Poaceae). Gene. 2014;533(1):142-8.
Adderley, S., & Sun, G. (2014). Molecular evolution and nucleotide diversity of nuclear plastid phosphoglycerate kinase (PGK) gene in Triticeae (Poaceae). Gene, 533(1), 142-8. https://doi.org/10.1016/j.gene.2013.09.103
Adderley S, Sun G. Molecular Evolution and Nucleotide Diversity of Nuclear Plastid Phosphoglycerate Kinase (PGK) Gene in Triticeae (Poaceae). Gene. 2014 Jan 1;533(1):142-8. PubMed PMID: 24120623.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Molecular evolution and nucleotide diversity of nuclear plastid phosphoglycerate kinase (PGK) gene in Triticeae (Poaceae). AU - Adderley,Shawn, AU - Sun,Genlou, Y1 - 2013/10/11/ PY - 2013/06/28/received PY - 2013/09/13/revised PY - 2013/09/26/accepted PY - 2013/10/15/entrez PY - 2013/10/15/pubmed PY - 2014/1/22/medline KW - Evolution KW - MP KW - NJ KW - Nucleotide diversity KW - PGK KW - Plastid phosphoglycerate kinase (PGK) gene KW - TBR KW - Triticeae KW - maximum-parsimony KW - neighbor-joining KW - plastid phosphoglycerate kinase KW - tree bisection–reconnection SP - 142 EP - 8 JF - Gene JO - Gene VL - 533 IS - 1 N2 - Levels of nucleotide divergence provide key evidence in the evolution of polyploids. The nucleotide diversity of 226 sequences of pgk1 gene in Triticeae species was characterized. Phylogenetic analyses based on the pgk1 gene were carried out to determine the diploid origin of polyploids within the tribe in relation to their A(u), B, D, St, Ns, P, and H haplomes. Sequences from the Ns genome represented the highest nucleotide diversity values for both polyploid and diploid species with π=0.03343 and θ=0.03536 for polyploid Ns genome sequences and π=0.03886 and θ=0.03886 for diploid Psathyrostachys sequences, while Triticum urartu represented the lowest diversity among diploid species at π=0.0011 and θ=0.0011. Nucleotide variation of diploid Aegilops speltoides (π=0.2441, presumed the B genome donor of Triticum species) is five times higher than that (π=0.00483) of B genome in polyploid species. Significant negative Tajima's D values for the St, A(u), and D genomes along with high rates of polymorphisms and low sequence diversity were observed. Origins of the A(u), B, and D genomes were linked to T. urartu, A. speltoides, and A. tauschii, respectively. Putative St genome donor was Pseudoroegneria, while Ns and P donors were Psathyrostachys and Agropyron. H genome diploid donor is Hordeum. SN - 1879-0038 UR - https://www.unboundmedicine.com/medline/citation/24120623/Molecular_evolution_and_nucleotide_diversity_of_nuclear_plastid_phosphoglycerate_kinase__PGK__gene_in_Triticeae__Poaceae__ L2 - https://linkinghub.elsevier.com/retrieve/pii/S0378-1119(13)01337-1 DB - PRIME DP - Unbound Medicine ER -