Nucleotide diversity and linkage disequilibrium of nine genes with putative effects on flowering time in perennial ryegrass (Lolium perenne L.)

Alice Fiil; Ingo Lenk; Klaus Petersen; Christian S. Jensen; Klaus K. Nielsen; Britt Schejbel; Jeppe Reitan Andersen; Thomas Lübberstedt

doi:10.1016/j.plantsci.2010.08.015

Nucleotide diversity and linkage disequilibrium of nine genes with putative effects on flowering time in perennial ryegrass (Lolium perenne L.)

Alice Fiil, Ingo Lenk, Klaus Petersen, Christian S. Jensen, Klaus K. Nielsen, Britt Schejbel, Jeppe Reitan Andersen, Thomas Lübberstedt

Functional Genomics

27 Citations (Scopus)

Abstract

Optimization of flowering is an important breeding goal in forage and turf grasses, such as perennial ryegrass (Lolium perenne L.). Nine floral control genes including Lolium perenne CONSTANS (LpCO), SISTER OF FLOWERING LOCUS T (LpSFT), TERMINAL FLOWER1 (LpTFL1), VERNALIZATION1 (LpVRN1, identical to LpMADS1) and five additional MADS-box genes, were analyzed for nucleotide diversity and linkage disequilibrium (LD). For each gene, about 1 kb genomic fragments were isolated from 10 to 20 genotypes of perennial ryegrass of diverse origin. Four to twelve haplotypes per gene were observed. On average, one single nucleotide polymorphism (SNP) was present per 127 bp between two randomly sampled sequences for the nine genes (π = 0.00790). Two MADS-box genes, LpMADS1 and LpMADS10, involved in timing of flowering showed high nucleotide diversity and rapid LD decay, whereas MADS-box genes involved in floral organ identity were found to be highly conserved and showed extended LD. For LpMADS4, LpMADS5, LpCO, LpSFT and LpTFL1, LD extended over the entire region analyzed. The results are compared to previously published results on resistance genes within the same collection of genotypes and the prospects for association mapping of floral control in perennial ryegrass are discussed.

Original language	English
Journal	Plant Science
Volume	180
Issue number	2
Pages (from-to)	228-237
Number of pages	10
ISSN	0168-9452
DOIs	https://doi.org/10.1016/j.plantsci.2010.08.015
Publication status	Published - Feb 2011

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10.1016/j.plantsci.2010.08.015

http://www.sciencedirect.com/science/article/pii/S0168945210002396

Cite this

@article{e9a59a15d055438ea4f9721afa12e2a5,

title = "Nucleotide diversity and linkage disequilibrium of nine genes with putative effects on flowering time in perennial ryegrass (Lolium perenne L.)",

abstract = "Optimization of flowering is an important breeding goal in forage and turf grasses, such as perennial ryegrass (Lolium perenne L.). Nine floral control genes including Lolium perenne CONSTANS (LpCO), SISTER OF FLOWERING LOCUS T (LpSFT), TERMINAL FLOWER1 (LpTFL1), VERNALIZATION1 (LpVRN1, identical to LpMADS1) and five additional MADS-box genes, were analyzed for nucleotide diversity and linkage disequilibrium (LD). For each gene, about 1 kb genomic fragments were isolated from 10 to 20 genotypes of perennial ryegrass of diverse origin. Four to twelve haplotypes per gene were observed. On average, one single nucleotide polymorphism (SNP) was present per 127 bp between two randomly sampled sequences for the nine genes (π = 0.00790). Two MADS-box genes, LpMADS1 and LpMADS10, involved in timing of flowering showed high nucleotide diversity and rapid LD decay, whereas MADS-box genes involved in floral organ identity were found to be highly conserved and showed extended LD. For LpMADS4, LpMADS5, LpCO, LpSFT and LpTFL1, LD extended over the entire region analyzed. The results are compared to previously published results on resistance genes within the same collection of genotypes and the prospects for association mapping of floral control in perennial ryegrass are discussed.",

author = "Alice Fiil and Ingo Lenk and Klaus Petersen and Jensen, {Christian S.} and Nielsen, {Klaus K.} and Britt Schejbel and Andersen, {Jeppe Reitan} and Thomas L{\"u}bberstedt",

year = "2011",

month = feb,

doi = "10.1016/j.plantsci.2010.08.015",

language = "English",

volume = "180",

pages = "228--237",

journal = "Plant Science",

issn = "0168-9452",

publisher = "Elsevier Ireland Ltd",

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T1 - Nucleotide diversity and linkage disequilibrium of nine genes with putative effects on flowering time in perennial ryegrass (Lolium perenne L.)

AU - Fiil, Alice

AU - Lenk, Ingo

AU - Petersen, Klaus

AU - Jensen, Christian S.

AU - Nielsen, Klaus K.

AU - Schejbel, Britt

AU - Andersen, Jeppe Reitan

AU - Lübberstedt, Thomas

PY - 2011/2

Y1 - 2011/2

N2 - Optimization of flowering is an important breeding goal in forage and turf grasses, such as perennial ryegrass (Lolium perenne L.). Nine floral control genes including Lolium perenne CONSTANS (LpCO), SISTER OF FLOWERING LOCUS T (LpSFT), TERMINAL FLOWER1 (LpTFL1), VERNALIZATION1 (LpVRN1, identical to LpMADS1) and five additional MADS-box genes, were analyzed for nucleotide diversity and linkage disequilibrium (LD). For each gene, about 1 kb genomic fragments were isolated from 10 to 20 genotypes of perennial ryegrass of diverse origin. Four to twelve haplotypes per gene were observed. On average, one single nucleotide polymorphism (SNP) was present per 127 bp between two randomly sampled sequences for the nine genes (π = 0.00790). Two MADS-box genes, LpMADS1 and LpMADS10, involved in timing of flowering showed high nucleotide diversity and rapid LD decay, whereas MADS-box genes involved in floral organ identity were found to be highly conserved and showed extended LD. For LpMADS4, LpMADS5, LpCO, LpSFT and LpTFL1, LD extended over the entire region analyzed. The results are compared to previously published results on resistance genes within the same collection of genotypes and the prospects for association mapping of floral control in perennial ryegrass are discussed.

AB - Optimization of flowering is an important breeding goal in forage and turf grasses, such as perennial ryegrass (Lolium perenne L.). Nine floral control genes including Lolium perenne CONSTANS (LpCO), SISTER OF FLOWERING LOCUS T (LpSFT), TERMINAL FLOWER1 (LpTFL1), VERNALIZATION1 (LpVRN1, identical to LpMADS1) and five additional MADS-box genes, were analyzed for nucleotide diversity and linkage disequilibrium (LD). For each gene, about 1 kb genomic fragments were isolated from 10 to 20 genotypes of perennial ryegrass of diverse origin. Four to twelve haplotypes per gene were observed. On average, one single nucleotide polymorphism (SNP) was present per 127 bp between two randomly sampled sequences for the nine genes (π = 0.00790). Two MADS-box genes, LpMADS1 and LpMADS10, involved in timing of flowering showed high nucleotide diversity and rapid LD decay, whereas MADS-box genes involved in floral organ identity were found to be highly conserved and showed extended LD. For LpMADS4, LpMADS5, LpCO, LpSFT and LpTFL1, LD extended over the entire region analyzed. The results are compared to previously published results on resistance genes within the same collection of genotypes and the prospects for association mapping of floral control in perennial ryegrass are discussed.

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DO - 10.1016/j.plantsci.2010.08.015

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