Mapping of Gene Regulating Citric Acid Content in Tomato Fruit

doi:10.16420/j.issn.0513-353x.2023-0047

Acta Horticulturae Sinica ›› 2024, Vol. 51 ›› Issue (1): 67-76.doi: 10.16420/j.issn.0513-353x.2023-0047

• Genetic & Breeding·Germplasm Resources·Molecular Biology • Previous Articles Next Articles

Mapping of Gene Regulating Citric Acid Content in Tomato Fruit

TIAN Maosen¹^,², ZHOU Zhen², WANG Haijing², CUI Xia²^,^**(), SUN Shuai²^,^**()

¹ College of Horticulture，Qingdao Agricultural University，Qingdao 266109，China
² State Key Laboratory of Vegetable Biobreeding，Institute of Vegetables and Flowers，Chinese Academy of Agricultural Sciences，Beijing 100081，China

Received:2023-03-28 Revised:2023-07-24 Online:2024-01-25 Published:2024-01-16
Contact: **（E-mail：sunshuai01@caas.cn，cuixia@caas.cn）

Abstract

Abstract:

The content of citric acid in tomato fruit is one of the key factors affecting the flavor. Due to the citric acid content is greatly affected by the environment few genes related with citric acid content have been cloned. In this study，six QTLs，which control the content of citric acid，were identified using a recombinant inbred lines generated by crossing modern cultivated tomato‘Moneymaker’and S. pimpinellifolium‘PI365967’. Among them，q-CA6.1，a major QTL located at the terminal of chromosome 6，contributed 19.28% variation of citric acid content. To map qCA6.1 gene a BC₂F₂ mapping population was obtained by crossing two RILs with significant difference in citric acid content and with similar genotype and the difference only around the qCA6.1 region. The qCA6.1 gene were narrowed into 342 kb region including 47 gene. The development of linked molecular markers provides technical support for improving citric acid content in tomato breeding.

Key words: tomato, flavor, citric acid, recombinant inbred lines, QTL

TIAN Maosen, ZHOU Zhen, WANG Haijing, CUI Xia, SUN Shuai. Mapping of Gene Regulating Citric Acid Content in Tomato Fruit[J]. Acta Horticulturae Sinica, 2024, 51(1): 67-76.

Figures/Tables 9

References 24

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标记名称	正向引物（5′-3′）	反向引物（5′-3′）
Primer name	Forward primer	Reverse primer
M1	AAGCCATGCTACCATTGCTAGCT	AACCCATGCTTCAATGGTGAG
M2	TCTTGGTTACCGAGAGTTATAGCTTCTACG	ACTCGATCAACTGTGCTACATTAGATG
M3	ACCTGTCCAGAAAAACTGAAC	TCTGTTACTTGAGCTGAGC
M4	TTCTTCTCTCGTTCTCCTCC	TCGAGATCATCAATTTCCAAGGTCATTGGTG
M5	TGTGTAAGCTTGGTCGATG	ACTTAACGTGCTCGATGAAG
M6	TGCTTGAAGTCTCCTGATCATCC	TCCAACTATTGCCCATGATTTCCTG
M7	TTCTTCTCTCGTTCTCCTCC	TCGAGATCATCAATTTCCAAGGTCATTGGTG

标记名称	正向引物（5′-3′）	反向引物（5′-3′）
Primer name	Forward primer	Reverse primer
M1	AAGCCATGCTACCATTGCTAGCT	AACCCATGCTTCAATGGTGAG
M2	TCTTGGTTACCGAGAGTTATAGCTTCTACG	ACTCGATCAACTGTGCTACATTAGATG
M3	ACCTGTCCAGAAAAACTGAAC	TCTGTTACTTGAGCTGAGC
M4	TTCTTCTCTCGTTCTCCTCC	TCGAGATCATCAATTTCCAAGGTCATTGGTG
M5	TGTGTAAGCTTGGTCGATG	ACTTAACGTGCTCGATGAAG
M6	TGCTTGAAGTCTCCTGATCATCC	TCCAACTATTGCCCATGATTTCCTG
M7	TTCTTCTCTCGTTCTCCTCC	TCGAGATCATCAATTTCCAAGGTCATTGGTG

位点	分子标记	染色体	物理位置/kb	表型变异贡献率/%
QTL	Molecular marker	Chromosome	Postion on SL2.50	PVE
qCA2.1	M8	2	51 038 ~ 51 377	6.11
qCA6.1	M9	6	41 515 ~ 45 404	19.28
qCA8.1	M10	8	2 079 ~ 2 746	1.51
qCA10.1	M11	10	199 ~ 499	2.08
qCA12.1	M12	12	5 236 ~ 6 213	1.70
qCA12.2	M13	12	38 976 ~ 39 425	2.44

位点	分子标记	染色体	物理位置/kb	表型变异贡献率/%
QTL	Molecular marker	Chromosome	Postion on SL2.50	PVE
qCA2.1	M8	2	51 038 ~ 51 377	6.11
qCA6.1	M9	6	41 515 ~ 45 404	19.28
qCA8.1	M10	8	2 079 ~ 2 746	1.51
qCA10.1	M11	10	199 ~ 499	2.08
qCA12.1	M12	12	5 236 ~ 6 213	1.70
qCA12.2	M13	12	38 976 ~ 39 425	2.44

单株编号 Plant number	分子标记Molecular marker						柠檬酸含量/（mg · g^-1FW） Citric acid content
单株编号 Plant number	M1	M2	M3	M4	M5	M6	柠檬酸含量/（mg · g^-1FW） Citric acid content
21N16-204	M	M	M	M	M	M	9.03 ± 1.26
21N16-209	P	P	P	P	P	P	18.55 ± 1.69
21N16-3	M	P	P	P	P	P	16.36 ± 1.80
21N16-14	M	M	M	M	P	P	8.68 ± 1.65
21N16-17	M	M	M	M	P	P	10.51 ± 0.28
21N16-2	P	P	M	M	M	M	8.77 ± 0.87

Mapping of Gene Regulating Citric Acid Content in Tomato Fruit

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基因组版本	基因编号	是否在果实中表达	基因注释
Genome	Gene ID	Expression in fruit	Annotation
SL2.50	Solyc06g073210	是Yes	远红损伤反应性家族蛋白Far-red impaired responsive family protein
SL2.50	Solyc06g073220	否No	柱头特异性蛋白（片段）Stigma-specific protein (Fragment)
SL2.50	Solyc06g073230	是Yes	类tRNA二氢尿苷合酶2蛋白 tRNA-dihydrouridine synthase 2-like protein
SL2.50	Solyc06g073240	是Yes	乙酰木聚糖酯酶A Acetyl xylan esterase A
SL2.50	Solyc06g073250	否No	未知蛋白 Unknown Protein
SL2.50	Solyc06g073260	否No	NAD依赖型差向异构酶/脱水酶 NAD-dependent epimerase/dehydratase
SL2.50	Solyc06g073270	是Yes	高尔基体膜蛋白tvp23 Golgi apparatus membrane protein tvp23
SL2.50	Solyc06g073280	是Yes	LL二氨基苯甲酸氨基转移酶LL-diaminopimelate aminotransferase
SL2.50	Solyc06g073290	是Yes	类Gun4蛋白Gun4-like protein
SL2.50	Solyc06g073300	是Yes	60S核糖体蛋白L2760S ribosomal protein L27
SL2.50	Solyc06g073310	是Yes	类核糖体L9蛋白 Ribosomal L9-like protein
SL2.50	Solyc06g073320	是Yes	GDP-L-半乳糖磷酸化酶1 GDP-L-galactose phosphorylase 1
SL2.50	Solyc06g073330	是Yes	赖氨酰tRNA合成酶 Lysyl-tRNA synthetase
SL2.50	Solyc06g073340	是Yes	类Ariadne泛素连接酶 Ariadne-like ubiquitin ligase
SL2.50	Solyc06g073350	否No	钙依赖性蛋白激酶2 Calcium-dependent protein kinase 2
SL2.50	Solyc06g073360	是Yes	未知蛋白Unknown Protein
SL2.50	Solyc06g073370	是Yes	40S核糖体蛋白S18 40S ribosomal protein S18
SL2.50	Solyc06g073380	是Yes	UPF0558蛋白C1orf156同源物 UPF0558 protein C1orf156 homolog
SL2.50	Solyc06g073390	是Yes	法尼基转移酶/I型香叶基香叶基转移酶α亚基 Farnesyltransferase/type I geranylgeranyltransferase α subunit
SL2.50	Solyc06g073400	是Yes	类核酸内切酶III蛋白1 Endonuclease III-like protein 1
SL2.50	Solyc06g073410	是Yes	类γAPH1分泌酶亚基 Gamma-secretase subunit APH1-like
SL2.50	Solyc06g073420	是Yes	肌醇转运蛋白2 Myo-inositol transporter 2
SL2.50	Solyc06g073430	是Yes	40S核糖体蛋白S29 40S ribosomal protein S29
SL2.50	Solyc06g073440	否No	未知蛋白Unknown Protein
SL2.50	Solyc06g073450	是Yes	Os11g0282300蛋白(片段)，功能未知 Os11g0282300 protein (Fragment)，unknown function
SL2.50	Solyc06g073460	是Yes	谷胱甘肽过氧化物酶 Glutathione peroxidase
SL2.50	Solyc06g073470	是Yes	生物素合成酶 Biotin synthase
SL2.50	Solyc06g073480	否No	光敏反应型NPH3家族蛋白 Phototropic-responsive NPH3 family protein
SL2.50	Solyc06g073490	是Yes	未知蛋白Unknown Protein
SL2.50	Solyc06g073500	是Yes	未知蛋白Unknown Protein
SL2.50	Solyc06g073510	是Yes	起始点识别复合物亚基2 Origin recognition complex subunit 2
SL2.50	Solyc06g073520	是Yes	35个溶质载体家族成员F1 Solute carrier family 35 member F1
SL2.50	Solyc06g073530	是Yes	类AGO4蛋白 Argonaute4-like
SL2.50	Solyc06g073540	是Yes	类AGO4蛋白 Argonaute4-like
SL2.50	Solyc06g073550	是Yes	类La相关蛋白 La-related protein-like
SL2.50	Solyc06g073560	否No	异戊酰辅酶A脱氢酶 Isovaleryl-CoA dehydrogenase
SL2.50	Solyc06g073570	否No	细胞色素P450 Cytochrome P450
SL2.50	Solyc06g073580	否No	1-氨基环丙烷-1-羧酸氧化酶1 1-Aminocyclopropane-1-carboxylate oxidase 1
SL2.50	Solyc06g073590	否No	水通道蛋白Z跨膜水通道 Aquaporin Z transmembrane water channel
SL2.50	Solyc06g073600	是Yes	泛素相关/TS-N 结构域蛋白 Ubiquitin-associated /TS-N domain-containing protein
SL2.50	Solyc06g073610	否No	细胞周期蛋白B1 Cyclin B1
SL2.50	Solyc06g073620	是Yes	亚钼嘌呤合酶催化亚基 Molybdopterin synthase catalytic subunit
SL2.50	Solyc06g073630	是Yes	细胞分裂蛋白激酶9 Cell division protein kinase 9
SL2.50	Solyc06g073640	否No	MYB转录因子 MYB transcription factor
SL2.50	Solyc06g073650	是Yes	WD重复蛋白 WD-repeat protein
SL2.50	Solyc06g073660	是Yes	类非特异性脂质转移蛋白蛋白 Non-specific lipid-transfer protein-like protein
SL2.50	Solyc06g073670	是Yes	蛋白质FAR1相关序列3 Protein FAR1-RELATED SEQUENCE 3

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