Evaluation of Pedicel Length and QTL Mapping in Cucumber Germplasm Resources

doi:10.7668/hbnxb.20196072

Abstract

Abstract:

Evaluating the pedicel length trait of cucumber germplasm resources and exploring the related variation sites can help improve the breeding efficiency of cucumber quality.This study first evaluates the fruit pedicle length traits of 229 cucumber germplasm resources on the day of flowering and during the commercial fruiting period.Then,using the identified medium to long pedicle self-cross lines 9D6 and 6457 as parents,and short pedicle self-cross lines MT and 6429 as parents,F₂ populations were constructed.QTL-seq was used to locate the QTLs controlling cucumber pedicel length traits,and Real-time Quantitative PCR(qRT-PCR)was employed to analyze the expression patterns of candidate genes and validate variant sites.The results showed that the pedicel length on the day of flowering and during the commercial melon period was positively correlated with the germplasm resources,and the variation of the pedicel length on the day of flowering and during the commercial melon period was 0.4—6.2 cm,0.4—5.3 cm,respectively.Genetic analysis showed that the broad genetic forces of cucumber pedicel length were 69.4%,94.4%,respectively,showing typical quantitative trait inheritance characteristics.Six and five QTL loci related to pedicel length on the day of flowering were detected in two sets of F₂ population,respectively.Two QTL intervals 0.840—7.350 Mb on chromosome 5 and 17.735—31.087 Mb on chromosome 6 were co-localized in the two sets of populations.CsPG1(CsaV3_5G010970)and CsROS1 (CsaV3_6G040410)were predicted within the QTL interval of co-location.A non-synonymous SNP311 C/T was found at the conserved domain of CsPG1 coding sequence(CDS)in the medium-long fruit pedicel parental lines 9D6 and 6457.In addition,there was a 9-bp base insertion in the CsPG1 promoter of 9D6,which contained TATA-box,which may be related to its significantly higher expression than other parents on the day of flowering.A 3-bp deletion was found at the CDS of CsROS1 in the short fruit pedicel parental lines 6429,resulting in the loss of one serine residue in the encoded protein.A synonymous SNP3282 T/C was detected at the CDS in the long fruit pedicel parental lines 9D6 and 6457,causing the preferred codon UAU to change to the non-preferred codon UAC.CsPG1 and CsROS1 were considered to be key candidate genes for cucumber fruit pedicel length.

Key words: Cucumber, Germplasm resource, Pedicel length, Genetic analysis, QTL analysis, qRT-PCR

CLC Number:

LEI Xiaoxiao, SONG Xiaofei, LI Xiaoli, ZHANG Jiaojiao, WANG Chen, JIA Jianhua, XIE Yang, YAN Liying. Evaluation of Pedicel Length and QTL Mapping in Cucumber Germplasm Resources[J]. Acta Agriculturae Boreali-Sinica, 2026, 41(2): 47-55. doi: 10.7668/hbnxb.20196072.

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References 24

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引物名称 Primer name	引物序列(5'—3') Primer sequence(5'—3')	引物名称 Primer name	引物序列(5'—3') Primer sequence(5'—3')
UBI-F	CACCAAGCCCAAGAAGATC	CsaV3_6G040410-cDNA-F1	ATGAGTGTGGAAAATCCATGGG
UBI-R	TAAACCTAATCACCACCAGC	CsaV3_6G040410-cDNA-R1	CCAATGGTTCAGTACTGAATGTG
CsaV3_5G010970-qPCR-F	TTTGCTTGGCAATCCTGTGC	CsaV3_6G040410-cDNA-F2	GTTCGAATCTTCATCCAACTC
CsaV3_5G010970-qPCR-R	GCCCCACTAGAAATGTGCCT	CsaV3_6G040410-cDNA-R2	GATGCTGCTCTGTTCCATCC
CsaV3_6G040410-qPCR-F	TAGTCTTGGAATCGTCTTGT	CsaV3_6G040410-cDNA-F3	ATCCTCAGGTGCCCAAGTT
CsaV3_6G040410-qPCR-R	TCTGAGTGGCTGGAGTAG	CsaV3_6G040410-cDNA-R3	TCGTTTCCCAAAGAACATGC
CsaV3_5G010970-SNP-F	TTTGCTTGGCAATCCTGTGC	CsaV3_6G040410-cDNA-F4	TATGCGTGGATACCAGTGCT
CsaV3_5G010970-SNP-R	ACACTCCAACAACACTGCCA	CsaV3_6G040410-cDNA-R4	TATCTCTCCTTCCAGTCGCC
CsaV3_5G010970-promoter-F	TGACGAGGATTGTGATGAA	CsaV3_6G040410-cDNA-F5	GCAAGTTCAATGATCCAAAATCAG
CsaV3_5G010970-promoter-R	CATTCTGATGGTAAGTGTCT	CsaV3_6G040410-cDNA-R5	GGAATCTCATCAGGGTCTTCG
CsaV3_6G040410-promoter-F	TCTTCCTTGTATTGCCTTGT	CsaV3_6G040410-cDNA-F6	GCCCACAGATTTCTGAAATTG
CsaV3_6G040410-promoter-R	CTTCCTCATGCGATGGTT	CsaV3_6G040410-cDNA-R6	CTACTTACCATCTGGGTTGTCT

引物名称 Primer name	引物序列(5'—3') Primer sequence(5'—3')	引物名称 Primer name	引物序列(5'—3') Primer sequence(5'—3')
UBI-F	CACCAAGCCCAAGAAGATC	CsaV3_6G040410-cDNA-F1	ATGAGTGTGGAAAATCCATGGG
UBI-R	TAAACCTAATCACCACCAGC	CsaV3_6G040410-cDNA-R1	CCAATGGTTCAGTACTGAATGTG
CsaV3_5G010970-qPCR-F	TTTGCTTGGCAATCCTGTGC	CsaV3_6G040410-cDNA-F2	GTTCGAATCTTCATCCAACTC
CsaV3_5G010970-qPCR-R	GCCCCACTAGAAATGTGCCT	CsaV3_6G040410-cDNA-R2	GATGCTGCTCTGTTCCATCC
CsaV3_6G040410-qPCR-F	TAGTCTTGGAATCGTCTTGT	CsaV3_6G040410-cDNA-F3	ATCCTCAGGTGCCCAAGTT
CsaV3_6G040410-qPCR-R	TCTGAGTGGCTGGAGTAG	CsaV3_6G040410-cDNA-R3	TCGTTTCCCAAAGAACATGC
CsaV3_5G010970-SNP-F	TTTGCTTGGCAATCCTGTGC	CsaV3_6G040410-cDNA-F4	TATGCGTGGATACCAGTGCT
CsaV3_5G010970-SNP-R	ACACTCCAACAACACTGCCA	CsaV3_6G040410-cDNA-R4	TATCTCTCCTTCCAGTCGCC
CsaV3_5G010970-promoter-F	TGACGAGGATTGTGATGAA	CsaV3_6G040410-cDNA-F5	GCAAGTTCAATGATCCAAAATCAG
CsaV3_5G010970-promoter-R	CATTCTGATGGTAAGTGTCT	CsaV3_6G040410-cDNA-R5	GGAATCTCATCAGGGTCTTCG
CsaV3_6G040410-promoter-F	TCTTCCTTGTATTGCCTTGT	CsaV3_6G040410-cDNA-F6	GCCCACAGATTTCTGAAATTG
CsaV3_6G040410-promoter-R	CTTCCTCATGCGATGGTT	CsaV3_6G040410-cDNA-R6	CTACTTACCATCTGGGTTGTCT

群体 Group	AIC值 AIC	主基因1加性效应(d) d_a(d)	F₂主基因遗传方差 Major-gene variance in F₂	F₂主基因遗传率/% Heritability (Major gene F₂)
9D6×MT	1 101.116	0.445	0.329	71.4
6457×6429	381.003	0.456	0.358	78.9

群体 Group	AIC值 AIC	主基因1加性效应(d) d_a(d)	F₂主基因遗传方差 Major-gene variance in F₂	F₂主基因遗传率/% Heritability (Major gene F₂)
9D6×MT	1 101.116	0.445	0.329	71.4
6457×6429	381.003	0.456	0.358	78.9

群体 Population	染色体 Chromosome	候选区间/Mb Candidate intervals	基因数 Genes	变异位点数 Variantions
9D6×MT	1号染色体	8.772~11.725	8	23
	2号染色体	1.832~7.025	142	242
		19.342~19.735
	3号染色体	1.729~2.729	1	3
	5号染色体	0.001~21.154	634	1 255
	6号染色体	17.735~31.094	78	115
6457×6429	1号染色体	0.020~5.559	33	65
	4号染色体	5.021~22.559	286	623
	5号染色体	0.840~7.350	93	186
	6号染色体	0.006~6.619	2 565	2 651
		10.025~31.087

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