Table 1.
Open in new tab

Gene Composition at the Z- and the S-Locus of the Gametophytic Self-incompatibility (SI) System in Ryegrass (Lolium spp.).

SI locusGene nameGene annotation nameGene description NCBI
Lolium perenne P226/135/16 (inbred)aLolium perenne Kyuss (doubled haploid)bLolium multiflorum Rabiosa (heterozygous)c
ZUSP1XLOC_023214KYUS_G_chr2.53349Lmu01_1905G0001430 & Lmu01_3448G0000660Ubiquitin carboxyl-terminal hydrolase
ZZDUF247-IXLOC_014562KYUS_G_chr2.53348Lmu01_1905G0001490 & Lmu01_3448G0000640DUF247; Plant protein of unknown function
ZsZXLOC_023217KYUS_G_chr2.53336Lmu01_1905G0001500 & Lmu01_3448G0000650Conserved hypothetical protein
ZZDUF247-IIXLOC_014562chr2 14505344...14507005dLmu01_1905G0001500 & scf3448 1166016...1167647dDUF247; Plant protein of unknown function
ZGK-1XLOC_008351KYUS_G_chr2.53334Lmu01_1905G0001510 & Lmu01_3448G0000620Glycerol kinase
ZGK-2XLOC_014564NAeNAeGlycerol kinase
ZLRR8XLOC_008352KYUS_G_chr2.53330Lmu01_1905G0001520 & Lmu01_3448G0000600LRR receptor-like protein
SRecQXLOC_040775KYUS_G_chr1.6323Lmu01_818G0000120 & Lmu01_1212G0000470Putative DNA helicase RecQ
STIR1XLOC_005302KYUS_G_chr1.6316Lmu01_818G0000130 & Lmu01_1212G0000460Transport inhibitor response 1-like protein
SdsRNAbpXLOC_005304KYUS_G_chr1.6309Lmu01_818G0000140 & Lmu01_1212G0000450Double-stranded RNA-binding protein 2
SSNF2XLOC_005306KYUS_G_chr1.6308Lmu01_818G0000150 & Lmu01_1212G0000440Probable chromatin-remodeling complex ATPase chain
SSDUF247-Ichr1 45765361...45766956dchr1 224982167...224983759dLmu01_818G0000190 & Lmu01_1212G0000400DUF247; Plant protein of unknown function
SsSXLOC_013962chr1 224985003...224984683dLmu01_818G0000200 & Lmu01_1212G0000430Conserved hypothetical protein
SSDUF247-IIchr 1 45834579...45836240dKYUS_G_chr1.6214Lmu01_818G0000210 & scf1212 4724980...4726635dDUF247; Plant protein of unknown function
SPLP-2XLOC_040815NAeNAe & Lmu01_1212G0000360Pyridoxal phosphate homeostasis protein
SNBS-LRR-2XLOC_040814NAeNAe & Lmu01_1212G0000350NBS-LRR-like resistance protein
SPLP-1XLOC_040815KYUS_G_chr1.6210Lmu01_818G0000230 & Lmu01_1212G0000340Pyridoxal phosphate homeostasis protein
SNBS-LRR-1XLOC_040817KYUS_G_chr1.6209Lmu01_818G0000240 & Lmu01_1212G0000330NBS-LRR-like resistance protein
STPR-2NAeNAeLmu01_818G0000280 & NAeAnaphase-promoting complex subunit 7
STPR-1XLOC_019013KYUS_G_chr1.6161Lmu01_818G0000290 & Lmu01_1212G0000280Anaphase-promoting complex subunit 7
SCa2+bpXLOC_000861KYUS_G_chr1.6125Lmu01_818G0000300 & Lmu01_1212G0000270Serine-protein phosphatase 2A regulatory subunit B
SI locusGene nameGene annotation nameGene description NCBI
Lolium perenne P226/135/16 (inbred)aLolium perenne Kyuss (doubled haploid)bLolium multiflorum Rabiosa (heterozygous)c
ZUSP1XLOC_023214KYUS_G_chr2.53349Lmu01_1905G0001430 & Lmu01_3448G0000660Ubiquitin carboxyl-terminal hydrolase
ZZDUF247-IXLOC_014562KYUS_G_chr2.53348Lmu01_1905G0001490 & Lmu01_3448G0000640DUF247; Plant protein of unknown function
ZsZXLOC_023217KYUS_G_chr2.53336Lmu01_1905G0001500 & Lmu01_3448G0000650Conserved hypothetical protein
ZZDUF247-IIXLOC_014562chr2 14505344...14507005dLmu01_1905G0001500 & scf3448 1166016...1167647dDUF247; Plant protein of unknown function
ZGK-1XLOC_008351KYUS_G_chr2.53334Lmu01_1905G0001510 & Lmu01_3448G0000620Glycerol kinase
ZGK-2XLOC_014564NAeNAeGlycerol kinase
ZLRR8XLOC_008352KYUS_G_chr2.53330Lmu01_1905G0001520 & Lmu01_3448G0000600LRR receptor-like protein
SRecQXLOC_040775KYUS_G_chr1.6323Lmu01_818G0000120 & Lmu01_1212G0000470Putative DNA helicase RecQ
STIR1XLOC_005302KYUS_G_chr1.6316Lmu01_818G0000130 & Lmu01_1212G0000460Transport inhibitor response 1-like protein
SdsRNAbpXLOC_005304KYUS_G_chr1.6309Lmu01_818G0000140 & Lmu01_1212G0000450Double-stranded RNA-binding protein 2
SSNF2XLOC_005306KYUS_G_chr1.6308Lmu01_818G0000150 & Lmu01_1212G0000440Probable chromatin-remodeling complex ATPase chain
SSDUF247-Ichr1 45765361...45766956dchr1 224982167...224983759dLmu01_818G0000190 & Lmu01_1212G0000400DUF247; Plant protein of unknown function
SsSXLOC_013962chr1 224985003...224984683dLmu01_818G0000200 & Lmu01_1212G0000430Conserved hypothetical protein
SSDUF247-IIchr 1 45834579...45836240dKYUS_G_chr1.6214Lmu01_818G0000210 & scf1212 4724980...4726635dDUF247; Plant protein of unknown function
SPLP-2XLOC_040815NAeNAe & Lmu01_1212G0000360Pyridoxal phosphate homeostasis protein
SNBS-LRR-2XLOC_040814NAeNAe & Lmu01_1212G0000350NBS-LRR-like resistance protein
SPLP-1XLOC_040815KYUS_G_chr1.6210Lmu01_818G0000230 & Lmu01_1212G0000340Pyridoxal phosphate homeostasis protein
SNBS-LRR-1XLOC_040817KYUS_G_chr1.6209Lmu01_818G0000240 & Lmu01_1212G0000330NBS-LRR-like resistance protein
STPR-2NAeNAeLmu01_818G0000280 & NAeAnaphase-promoting complex subunit 7
STPR-1XLOC_019013KYUS_G_chr1.6161Lmu01_818G0000290 & Lmu01_1212G0000280Anaphase-promoting complex subunit 7
SCa2+bpXLOC_000861KYUS_G_chr1.6125Lmu01_818G0000300 & Lmu01_1212G0000270Serine-protein phosphatase 2A regulatory subunit B

Note: The annotation is given for each gene of the three genotypes P226/135/16 (Lolium perenne L., inbred), Kyuss (L. perenne, doubled haploid), and the genotype M.02402/16 of the cultivar ‘Rabiosa’ (Lolium multiflorum Lam., heterozygous). Each gene is presented with a description of the function derived from the gene ortholog in the genus Oryza (NCBI, taxid 4527). Gene duplications are marked with an “–” plus an Arabic number at the end of the gene name.

a

Genome sequence from Nagy et al. (2022) and annotation file from Begheyn et al. (2018).

b

Genome sequence and annotation file from Frei et al. (2021).

c

Genome sequence and annotation file from Copetti et al. (2021).

d

Positions within a scaffold (scf) or chromosome (chr) are given as no annotation is present.

e

No orthologous gene sequence was identified.

Table 1.
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Gene Composition at the Z- and the S-Locus of the Gametophytic Self-incompatibility (SI) System in Ryegrass (Lolium spp.).

SI locusGene nameGene annotation nameGene description NCBI
Lolium perenne P226/135/16 (inbred)aLolium perenne Kyuss (doubled haploid)bLolium multiflorum Rabiosa (heterozygous)c
ZUSP1XLOC_023214KYUS_G_chr2.53349Lmu01_1905G0001430 & Lmu01_3448G0000660Ubiquitin carboxyl-terminal hydrolase
ZZDUF247-IXLOC_014562KYUS_G_chr2.53348Lmu01_1905G0001490 & Lmu01_3448G0000640DUF247; Plant protein of unknown function
ZsZXLOC_023217KYUS_G_chr2.53336Lmu01_1905G0001500 & Lmu01_3448G0000650Conserved hypothetical protein
ZZDUF247-IIXLOC_014562chr2 14505344...14507005dLmu01_1905G0001500 & scf3448 1166016...1167647dDUF247; Plant protein of unknown function
ZGK-1XLOC_008351KYUS_G_chr2.53334Lmu01_1905G0001510 & Lmu01_3448G0000620Glycerol kinase
ZGK-2XLOC_014564NAeNAeGlycerol kinase
ZLRR8XLOC_008352KYUS_G_chr2.53330Lmu01_1905G0001520 & Lmu01_3448G0000600LRR receptor-like protein
SRecQXLOC_040775KYUS_G_chr1.6323Lmu01_818G0000120 & Lmu01_1212G0000470Putative DNA helicase RecQ
STIR1XLOC_005302KYUS_G_chr1.6316Lmu01_818G0000130 & Lmu01_1212G0000460Transport inhibitor response 1-like protein
SdsRNAbpXLOC_005304KYUS_G_chr1.6309Lmu01_818G0000140 & Lmu01_1212G0000450Double-stranded RNA-binding protein 2
SSNF2XLOC_005306KYUS_G_chr1.6308Lmu01_818G0000150 & Lmu01_1212G0000440Probable chromatin-remodeling complex ATPase chain
SSDUF247-Ichr1 45765361...45766956dchr1 224982167...224983759dLmu01_818G0000190 & Lmu01_1212G0000400DUF247; Plant protein of unknown function
SsSXLOC_013962chr1 224985003...224984683dLmu01_818G0000200 & Lmu01_1212G0000430Conserved hypothetical protein
SSDUF247-IIchr 1 45834579...45836240dKYUS_G_chr1.6214Lmu01_818G0000210 & scf1212 4724980...4726635dDUF247; Plant protein of unknown function
SPLP-2XLOC_040815NAeNAe & Lmu01_1212G0000360Pyridoxal phosphate homeostasis protein
SNBS-LRR-2XLOC_040814NAeNAe & Lmu01_1212G0000350NBS-LRR-like resistance protein
SPLP-1XLOC_040815KYUS_G_chr1.6210Lmu01_818G0000230 & Lmu01_1212G0000340Pyridoxal phosphate homeostasis protein
SNBS-LRR-1XLOC_040817KYUS_G_chr1.6209Lmu01_818G0000240 & Lmu01_1212G0000330NBS-LRR-like resistance protein
STPR-2NAeNAeLmu01_818G0000280 & NAeAnaphase-promoting complex subunit 7
STPR-1XLOC_019013KYUS_G_chr1.6161Lmu01_818G0000290 & Lmu01_1212G0000280Anaphase-promoting complex subunit 7
SCa2+bpXLOC_000861KYUS_G_chr1.6125Lmu01_818G0000300 & Lmu01_1212G0000270Serine-protein phosphatase 2A regulatory subunit B
SI locusGene nameGene annotation nameGene description NCBI
Lolium perenne P226/135/16 (inbred)aLolium perenne Kyuss (doubled haploid)bLolium multiflorum Rabiosa (heterozygous)c
ZUSP1XLOC_023214KYUS_G_chr2.53349Lmu01_1905G0001430 & Lmu01_3448G0000660Ubiquitin carboxyl-terminal hydrolase
ZZDUF247-IXLOC_014562KYUS_G_chr2.53348Lmu01_1905G0001490 & Lmu01_3448G0000640DUF247; Plant protein of unknown function
ZsZXLOC_023217KYUS_G_chr2.53336Lmu01_1905G0001500 & Lmu01_3448G0000650Conserved hypothetical protein
ZZDUF247-IIXLOC_014562chr2 14505344...14507005dLmu01_1905G0001500 & scf3448 1166016...1167647dDUF247; Plant protein of unknown function
ZGK-1XLOC_008351KYUS_G_chr2.53334Lmu01_1905G0001510 & Lmu01_3448G0000620Glycerol kinase
ZGK-2XLOC_014564NAeNAeGlycerol kinase
ZLRR8XLOC_008352KYUS_G_chr2.53330Lmu01_1905G0001520 & Lmu01_3448G0000600LRR receptor-like protein
SRecQXLOC_040775KYUS_G_chr1.6323Lmu01_818G0000120 & Lmu01_1212G0000470Putative DNA helicase RecQ
STIR1XLOC_005302KYUS_G_chr1.6316Lmu01_818G0000130 & Lmu01_1212G0000460Transport inhibitor response 1-like protein
SdsRNAbpXLOC_005304KYUS_G_chr1.6309Lmu01_818G0000140 & Lmu01_1212G0000450Double-stranded RNA-binding protein 2
SSNF2XLOC_005306KYUS_G_chr1.6308Lmu01_818G0000150 & Lmu01_1212G0000440Probable chromatin-remodeling complex ATPase chain
SSDUF247-Ichr1 45765361...45766956dchr1 224982167...224983759dLmu01_818G0000190 & Lmu01_1212G0000400DUF247; Plant protein of unknown function
SsSXLOC_013962chr1 224985003...224984683dLmu01_818G0000200 & Lmu01_1212G0000430Conserved hypothetical protein
SSDUF247-IIchr 1 45834579...45836240dKYUS_G_chr1.6214Lmu01_818G0000210 & scf1212 4724980...4726635dDUF247; Plant protein of unknown function
SPLP-2XLOC_040815NAeNAe & Lmu01_1212G0000360Pyridoxal phosphate homeostasis protein
SNBS-LRR-2XLOC_040814NAeNAe & Lmu01_1212G0000350NBS-LRR-like resistance protein
SPLP-1XLOC_040815KYUS_G_chr1.6210Lmu01_818G0000230 & Lmu01_1212G0000340Pyridoxal phosphate homeostasis protein
SNBS-LRR-1XLOC_040817KYUS_G_chr1.6209Lmu01_818G0000240 & Lmu01_1212G0000330NBS-LRR-like resistance protein
STPR-2NAeNAeLmu01_818G0000280 & NAeAnaphase-promoting complex subunit 7
STPR-1XLOC_019013KYUS_G_chr1.6161Lmu01_818G0000290 & Lmu01_1212G0000280Anaphase-promoting complex subunit 7
SCa2+bpXLOC_000861KYUS_G_chr1.6125Lmu01_818G0000300 & Lmu01_1212G0000270Serine-protein phosphatase 2A regulatory subunit B

Note: The annotation is given for each gene of the three genotypes P226/135/16 (Lolium perenne L., inbred), Kyuss (L. perenne, doubled haploid), and the genotype M.02402/16 of the cultivar ‘Rabiosa’ (Lolium multiflorum Lam., heterozygous). Each gene is presented with a description of the function derived from the gene ortholog in the genus Oryza (NCBI, taxid 4527). Gene duplications are marked with an “–” plus an Arabic number at the end of the gene name.

a

Genome sequence from Nagy et al. (2022) and annotation file from Begheyn et al. (2018).

b

Genome sequence and annotation file from Frei et al. (2021).

c

Genome sequence and annotation file from Copetti et al. (2021).

d

Positions within a scaffold (scf) or chromosome (chr) are given as no annotation is present.

e

No orthologous gene sequence was identified.

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