TY - JOUR AU - ZHU, Yongxing AU - JIANG, Xinchen AU - HAN, Xiaowen AU - HAN, Shuo AU - CHEN, Zhongyi AU - YIN, Junliang AU - LIU, Yiqing PY - 2021/03/01 Y2 - 2024/03/29 TI - Characterization the coding and non-coding RNA components in the transcriptome of invasion weed Alternanthera philoxeroides JF - Notulae Botanicae Horti Agrobotanici Cluj-Napoca JA - Not Bot Horti Agrobo VL - 49 IS - 1 SE - Research Articles DO - 10.15835/nbha49112242 UR - https://www.notulaebotanicae.ro/index.php/nbha/article/view/12242 SP - 12242 AB - <p style="text-align: justify;"><em>Alternanthera philoxeroides</em> is a notorious invasive weed worldwide, but it still lacks a genome information currently. In this study, we collected 4 groups of <em>A. philoxeroides</em> Illumina RNA-seq data (62.5 Gb) and performed a comprehensive <em>de novo</em> assembling. Totally, 421,372 unigenes were obtained with a total length of 230,842,460 bp, with 43,430 (10.31%) unigenes longer than 1000 bp. Then 119,222 (28.3%) unigenes were functional annotated and 235,885 (56.0%) were grouped into reliable lncRNAs reservoir. Besides, 534 tRNA and 234 rRNAs were identified in assembly sequences. Additionally, 131,624 microsatellites were characterized in 106,761 sequences. Then SSR primers were developed for the amplification of 40,752 microsatellites in 36,329 sequences. The miRNAs are key post-transcriptional regulators, about 86 candidate miRNA sequences were detected from <em>A. philoxeroides </em>assembly, and miRNA target genes prediction revealed possible functions of them in growth and development as well as stress responding processes. These results provide a vital basis for sequence-based studies of<em> A. philoxeroides </em>in the future, especially gene function analysis.</p> ER -