Cotton Science

Genetic diversity and haplotype analysis of cotton Fusarium wilt based on gene sequences of EF-1α and β-tubulin

Wang Haiying, Chen Xiaohai, Zhong Yeyi, Gong Juwu, Liu Ping, Chin Yaoxian, Wang Peizheng, Yuan Youlu

Cotton Science, 2023, 35(4): 334-344. DOI: 10.11963/cs20220060

单倍型 Haplotype	菌株 Strain	序列数 Sequence number	序列数量占比 Proportion of sequence number/%
H1	13LIAN 8, 13LIAN C1, 13LIAN C17, 13LIAN X11, 13LIAN X30, 13LIAN X31, DAZHEN 20, DAZHEN 6, KUITUN C23, SANCHANG C21, SHIBU C2, SHIBU C3, SHIBU C4, SHIBU W2, SHIBU X12, SHIBU X13, SHIBU X14	17	29.82
H2	SHIBU W3	1	1.75
H3	SHIBU W4	1	1.75
H4	SHIBU W6	1	1.75
H5	SHIBU W9	1	1.75
H6	Race1 CA10, Race2 ATCC16611(1), Race3 CN3, Race4 ATCC16613, Race6 ATCC36198, Race7 CN7	6	10.53
H7	Race8 ATCC31665, Race8 CN8	2	3.51
H8	Race1 ATCC16421, Race1 ATCC46644	2	3.51
H9	Aus Type ATCC96291, Aus Type Aust16, Aus Type Aust19, Race2 ATCC16611(2), Race3 ATCC16612, Race3 CA3, Race4 CA14, Race8 CA1	8	14.04
H10	HB48, HB7, HB70, HB8-2	4	7.02
H11	HB114	1	1.75
H12	HB120, HB180-2, CA11, CC-611-2, CC-613-4	5	8.77
H13	LA112	1	1.75
H14	LA140	1	1.75
H15	AuK24301	1	1.75
H16	AuK24299, Fov218	2	3.51
H17	BBA65934	1	1.75
H18	FovE-1	1	1.75
H19	BBA69711	1	1.75

Table 3 Haplotype analysis based on EF-1α gene sequence

Other figure/table from this article

Table 1 GenBank accession number of EF-1α and β-tubulin gene of cotton Fusarium wilt
Fig. 1 Phylogenetic tree based on EF-1α gene sequence of cotton Fusarium wilt strains The value on each branch is the degree of genetic variation, which indicates the frequency of base replacement at each site in the gene. The calculation formula is: degree of variation = the number of mutated bases/the total number of bases.
Fig. 2 Phylogenetic tree based on β-tubulin gene sequence of cotton Fusarium wilt strains The value on each branch is the degree of genetic variation, which indicates the frequency of base replacement at each site in the gene. The calculation formula is: degree of variation = the number of mutated bases/the total number of bases.
Table 2 Haplotype characteristics of EF-1α and β-tubulin gene
Fig. 3 Haplotype network map constructed based on EF-1α gene sequence The number of short horizontal lines indicates the number of mutated bases between two haplotypes.
Fig. 4 Haplotype network map constructed based on β-tubulin gene sequence The number of short horizontal lines indicates the number of mutated bases between two haplotypes.
Table 4 Haplotype analysis based on β-tubulin gene sequence