Subjects: Biology >> Botany >> Applied botany submitted time 2024-03-26 Cooperative journals: 《广西植物》
Abstract： In this study, the ecological adaptation mechanisms of Anemone shikokiana in two distinct habitats, namely full-light hilltop scrub and shady mixed broadleaved-coniferous forest, were researched by Illumina high-throughput sequencing technology for leaves collected during the flowering stage. Moreover, EST-SSR molecular markers were developed based on SSR locus distribution characteristics. The results were as follows: (1) A total of 53 536 Unigenes sequences were obtained, of which 27 448 were successfully annotated. (2) 5 635 DEGs were obtained after filtering the low abundance genes, 1 600 up-regulated and 4 035 down-regulated genes comparing A. shikokiana in full-light hilltop scrub and in shady mixed coniferous forest. GO classification results showed that 2 460 DEGs were annotated to 2 533 tertiary entries. In addition, 1 051 DEGs were involved in 113 KEGG pathways. (3) The comprehensive analysis of the photosynthesis-antennal proteins pathway related genes revealed that the expression of lhca5 was significantly higher, while the expression of lhca1, lhca2 and lhca3 was significantly lower. Meanwhile, the comprehensive analysis of the flavonoid biosynthesis pathway related genes revealed that the expression of chs, c4h, f3’h, f3h, fls, ans, chi, ccoaomt and hct was significantly higher. (4) A total of 6 006 unigenes containing 7 146 SSRs were identified among 53 536 unigenes by using MISA software from the transcriptome data of A.shikokiana. In the identified SSRs, the dominant repeat motifs were single nucleotide repeats in 106 repetitive motif types. Among the 100 pairs of EST-SSR primers, a total of 68 pairs were effective and 11 pairs with polymorphism, and 24 polymorphic fragments were amplified. Overall, in this paper, the adaptation mechanisms of A.shikokiana in heterogeneous habitats were analyzed at the molecular level, and for the first time EST-SSR molecular markers were developed to fill the gap in this area, which would provide important molecular marker resource for the conservation and utilization of this species.
Subjects: Biology >> Botany >> Applied botany submitted time 2023-12-26 Cooperative journals: 《广西植物》
Abstract： In this study, the ecological adaptation mechanisms of Anemone shikokiana in two distinct habitats, namely full-light hilltop scrub and shady mixed broadleaved-coniferous forest, were researched by Illumina high-throughput sequencing technology for leaves collected during the flowering stage. Moreover, EST-SSR molecular markers were developed based on SSR locus distribution characteristics. The results were as follows: (1) A total of 53 536 Unigenes sequences were obtained, of which 27 448 were successfully annotated. (2) 5 635 DEGs were obtained after filtering the low abundance genes, 1 600 up-regulated and 4 035 down-regulated genes comparing A. shikokiana in full-light hilltop scrub and in shady mixed coniferous forest. GO classification results showed that 2 460 DEGs were annotated to 2 533 tertiary entries. In addition, 1 051 DEGs were involved in 113 KEGG pathways. (3) The comprehensive analysis of the photosynthesis-antennal proteins pathway related genes revealed that the expression of lhca5 was significantly higher, while the expression of lhca1, lhca2 and lhca3 was significantly lower. Meanwhile, the comprehensive analysis of the flavonoid biosynthesis pathway related genes revealed that the expression of chs, c4h, f3’h, f3h, fls, ans, chi, ccoaomt and hct was significantly higher. (4) A total of 6 006 unigenes containing 7 146 SSRs were identified among 53 536 unigenes by using MISA software from the transcriptome data of A.shikokiana. In the identified SSRs, the dominant repeat motifs were single nucleotide repeats in 106 repetitive motif types. Among the 100 pairs of EST-SSR primers, a total of 68 pairs were effective and 11 pairs with polymorphism, and 24 polymorphic fragments were amplified. Overall, in this paper, the adaptation mechanisms of A.shikokiana in heterogeneous habitats were analyzed at the molecular level, and for the first time EST-SSR molecular markers were developed to fill the gap in this area, which would provide important molecular marker resource for the conservation and utilization of this species.
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