Xinjiang Agricultural Sciences ›› 2022, Vol. 59 ›› Issue (10): 2446-2455.DOI: 10.6048/j.issn.1001-4330.2022.10.013
• Horticultural Special Local Products·Forestry·Agricultural Product Processing Engineering • Previous Articles Next Articles
YANG Yong1(), FAN Rong1, ZHANG Xuejun1, LI Meihua1, LING Yueming1, ZHANG Hong1, YANG Wenli1, JIANG Xue2, ZHANG Yongbing1(), YI Hongping1()
Received:
2021-11-24
Online:
2022-10-20
Published:
2022-12-21
Correspondence author:
ZHANG Yongbing, YI Hongping
Supported by:
杨永1(), 范蓉1, 张学军1, 李寐华1, 凌悦铭1, 张红1, 杨文莉1, 姜雪2, 张永兵1(), 伊鸿平1()
通讯作者:
张永兵,伊鸿平
作者简介:
杨永(1986-),男,山东人,副研究员,研究方向为甜瓜分子遗传育种,(E-mail)yangyongsj062@163.com
基金资助:
CLC Number:
YANG Yong, FAN Rong, ZHANG Xuejun, LI Meihua, LING Yueming, ZHANG Hong, YANG Wenli, JIANG Xue, ZHANG Yongbing, YI Hongping. QTL Mapping and Candidate Gene Analysis of Sucrose Content in the Center Flesh of Muskmelon[J]. Xinjiang Agricultural Sciences, 2022, 59(10): 2446-2455.
杨永, 范蓉, 张学军, 李寐华, 凌悦铭, 张红, 杨文莉, 姜雪, 张永兵, 伊鸿平. 厚皮甜瓜心部果肉蔗糖含量QTL定位及候选基因分析[J]. 新疆农业科学, 2022, 59(10): 2446-2455.
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样品 Sample | 原始 Reads Raw Reads | 原始 数据量 Raw Bases | 有效 Reads Valid Reads | 有效 数据量 Valid Bases | 有效 Reads比 Valid reads(%) | Q20 (%) | Q30 (%) | GC (%) | 比对率 Mapped (%) | 平均测 序深度 Mean Coverage |
---|---|---|---|---|---|---|---|---|---|---|
VZX | 54760488 | 8.21G | 54291372 | 8.05G | 99.02 | 95.63 | 89.07 | 36.16 | 99.02 | 19.47 |
HP | 54990792 | 8.25G | 54554276 | 8.09G | 98.8 | 95.59 | 89.07 | 37.03 | 98.8 | 18.71 |
HS | 57851318 | 8.68G | 56875210 | 7.91G | 98.78 | 96.81 | 92.22 | 44.01 | 98.72 | 17.12 |
LS | 61879250 | 9.28G | 60969402 | 8.57G | 98.72 | 96.75 | 92.19 | 43.7 | 98.78 | 15.72 |
Table 1 Quality statistics of sequence data
样品 Sample | 原始 Reads Raw Reads | 原始 数据量 Raw Bases | 有效 Reads Valid Reads | 有效 数据量 Valid Bases | 有效 Reads比 Valid reads(%) | Q20 (%) | Q30 (%) | GC (%) | 比对率 Mapped (%) | 平均测 序深度 Mean Coverage |
---|---|---|---|---|---|---|---|---|---|---|
VZX | 54760488 | 8.21G | 54291372 | 8.05G | 99.02 | 95.63 | 89.07 | 36.16 | 99.02 | 19.47 |
HP | 54990792 | 8.25G | 54554276 | 8.09G | 98.8 | 95.59 | 89.07 | 37.03 | 98.8 | 18.71 |
HS | 57851318 | 8.68G | 56875210 | 7.91G | 98.78 | 96.81 | 92.22 | 44.01 | 98.72 | 17.12 |
LS | 61879250 | 9.28G | 60969402 | 8.57G | 98.72 | 96.75 | 92.19 | 43.7 | 98.78 | 15.72 |
样品 Sample | SNP数量 SNPnumber | 转换类型 Transition | 颠换类型 Transversion | 转换颠换比 Ti/Tv | 杂合类型 Heterozygosity | 纯合类型 Homozygosity | 杂合比例 Het-ratio(%) |
---|---|---|---|---|---|---|---|
VZX | 1 085 663 | 715238 | 370425 | 1.93 | 288596 | 797067 | 26.58 |
HP | 1 447 738 | 957173 | 490565 | 1.95 | 334375 | 1113363 | 23.09 |
HS | 1 522 875 | 1040990 | 481885 | 2.16 | 1031661 | 491214 | 67.74 |
LS | 1 570 752 | 1071527 | 499225 | 2.14 | 1084333 | 486419 | 69.03 |
Table 2 Statistics of SNP polymorphism site
样品 Sample | SNP数量 SNPnumber | 转换类型 Transition | 颠换类型 Transversion | 转换颠换比 Ti/Tv | 杂合类型 Heterozygosity | 纯合类型 Homozygosity | 杂合比例 Het-ratio(%) |
---|---|---|---|---|---|---|---|
VZX | 1 085 663 | 715238 | 370425 | 1.93 | 288596 | 797067 | 26.58 |
HP | 1 447 738 | 957173 | 490565 | 1.95 | 334375 | 1113363 | 23.09 |
HS | 1 522 875 | 1040990 | 481885 | 2.16 | 1031661 | 491214 | 67.74 |
LS | 1 570 752 | 1071527 | 499225 | 2.14 | 1084333 | 486419 | 69.03 |
数据库 Annotated databases | 注释到的基因数 Annotated Gene Number |
---|---|
NR | 108 |
SwissProt | 72 |
GO | 88 |
KEGG | 40 |
COG | 101 |
Total | 108 |
Table 3 Number of annotated genes in different databases in the candidate interval
数据库 Annotated databases | 注释到的基因数 Annotated Gene Number |
---|---|
NR | 108 |
SwissProt | 72 |
GO | 88 |
KEGG | 40 |
COG | 101 |
Total | 108 |
基因编号 Gene ID | 长度 Length | 注释 Annotation | KEGG通路 KEGG pathway |
---|---|---|---|
EVM0001419 | 2 466 | PREDICTED: LOW QUALITY PROTEIN: beta-galactosidase 7-like [Cucumis melo] | brp00052(Galactose metabolism) |
EVM0004758 | 2 466 | PREDICTED: LOW QUALITY PROTEIN: beta-galactosidase 7-like [Cucumis melo] | brp00053(Galactose metabolism) |
EVM0005074 | 2 466 | PREDICTED: LOW QUALITY PROTEIN: beta-galactosidase 7-like [Cucumis melo] | brp00054(Galactose metabolism) |
EVM0013242 | 2 466 | PREDICTED: LOW QUALITY PROTEIN: beta-galactosidase 7-like [Cucumis melo] | brp00055(Galactose metabolism) |
EVM0000647 | 1 561 | PREDICTED: triosephosphate isomerase, cytosolic [Cucumis melo] | cmo00010(Glycolysis /Gluconeogenesis);cmo00051(Fructose and mannose metabolism);cmo00710(Carbon fixation in photosynthetic organisms) |
EVM0008701 | 3 160 | PREDICTED: zinc finger CCCH domain-containing protein 36-like [Cucumis melo] | gmx00052(Galactose metabolism);gmx00500(Starch and sucrose metabolism);gmx00520(Amino sugar and nucleotide sugar metabolism) |
EVM0019814 | 2 856 | PREDICTED: carbon catabolite repressor protein 4 homolog 1-like [Cucumis melo] | cmo03018(RNA degradation) |
Table 4 Candidate genes involved in sugar metabolism
基因编号 Gene ID | 长度 Length | 注释 Annotation | KEGG通路 KEGG pathway |
---|---|---|---|
EVM0001419 | 2 466 | PREDICTED: LOW QUALITY PROTEIN: beta-galactosidase 7-like [Cucumis melo] | brp00052(Galactose metabolism) |
EVM0004758 | 2 466 | PREDICTED: LOW QUALITY PROTEIN: beta-galactosidase 7-like [Cucumis melo] | brp00053(Galactose metabolism) |
EVM0005074 | 2 466 | PREDICTED: LOW QUALITY PROTEIN: beta-galactosidase 7-like [Cucumis melo] | brp00054(Galactose metabolism) |
EVM0013242 | 2 466 | PREDICTED: LOW QUALITY PROTEIN: beta-galactosidase 7-like [Cucumis melo] | brp00055(Galactose metabolism) |
EVM0000647 | 1 561 | PREDICTED: triosephosphate isomerase, cytosolic [Cucumis melo] | cmo00010(Glycolysis /Gluconeogenesis);cmo00051(Fructose and mannose metabolism);cmo00710(Carbon fixation in photosynthetic organisms) |
EVM0008701 | 3 160 | PREDICTED: zinc finger CCCH domain-containing protein 36-like [Cucumis melo] | gmx00052(Galactose metabolism);gmx00500(Starch and sucrose metabolism);gmx00520(Amino sugar and nucleotide sugar metabolism) |
EVM0019814 | 2 856 | PREDICTED: carbon catabolite repressor protein 4 homolog 1-like [Cucumis melo] | cmo03018(RNA degradation) |
Fig.7 Candidate genesNote:A: The basic structure of EVM值0000647and the difference sequence of EVM值0000647 between parents; B: The SNP in exon 8 of EVM值0000647 between parents; C: Differential expression of EVM值0000647 between parents
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