De novo transcriptome sequencing and candidate SSR/SNP marker analysis of Acer miaotaiense from the Duheyuan Nature Reserve

doi:10.14088/j.cnki.issn0439-8114.2026.09.034

Abstract

Abstract: To construct transcriptomic sequence resources for Acer miaotaiense and identify candidate molecular marker loci, leaf samples from six individual trees collected in the Duheyuan Nature Reserve were used as materials and subjected to de novo transcriptome sequencing using the Illumina NovaSeq 6000 platform, followed by functional annotation and identification of simple sequence repeat(SSR) and single nucleotide polymorphism (SNP) loci. The results showed that a total of 39 387 509 162 bp of clean data were obtained from the six samples, with Q30 values of 89.76%-94.02% and GC contents of 43.76%-44.31%. Through Trinity assembly, 98 641 transcripts and 43 501 unigenes were generated, with an average unigene length of 1 119.20 bp and an N50 of 2 082 bp. Among these, 26 276 unigenes were annotated in at least one database. In total, 11 738 candidate SSR loci were detected, with mononucleotide repeats being the most abundant type. In each sample, 111 195-117 726 candidate SNP loci were detected, with heterozygous SNPs predominating.

Key words: Acer miaotaiense, de novo transcriptome, functional annotation, simple sequence repeat(SSR), single nucleotide polymorphism (SNP), molecular markers

CLC Number:

WAN Dan, ZHANG Xiao, HE Bo-xuan, WANG Yang, ZHONG Chang-long. De novo transcriptome sequencing and candidate SSR/SNP marker analysis of Acer miaotaiense from the Duheyuan Nature Reserve[J]. HUBEI AGRICULTURAL SCIENCES, 2026, 65(9): 216-221.

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