title: Transcriptome-based investigation of cirrus development and identifying microsatellite markers in rattan (Daemonorops jenkinsiana).
abstract: Rattan is an important group of regenerating non-wood climbing palm in tropical forests. The cirrus is an essential climbing organ and provides morphological evidence for evolutionary and taxonomic studies. However, limited data are available on the molecular mechanisms underlying the development of the cirrus. Thus, we performed in-depth transcriptomic sequencing analyses to characterize the cirrus development at different developmental stages of Daemonorops jenkinsiana. The result showed 404,875 transcripts were assembled, including 61,569 high-quality unigenes were identified, of which approximately 76.16% were annotated and classified by seven authorized databases. Moreover, a comprehensive analysis of the gene expression profiles identified differentially expressed genes (DEGs) concentrated in developmental pathways, cell wall metabolism, and hook formation between the different stages of the cirri. Among them, 37 DEGs were validated by qRT-PCR. Furthermore, 14,693 transcriptome-based microsatellites were identified. Of the 168 designed SSR primer pairs, 153 were validated and 16 pairs were utilized for the polymorphic analysis of 25 rattan accessions. These findings can be used to interpret the molecular mechanisms of cirrus development, and the developed microsatellites markers provide valuable data for assisting rattan taxonomy and expanding the understanding of genomic study in rattan.
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, International Center for Bamboo and Rattan, Beijing 100102, China.
authors.forename: Hansheng
authors.initials: H
authors.lastname: Zhao
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, International Center for Bamboo and Rattan, Beijing 100102, China.
authors.forename: Huayu
authors.initials: H
authors.lastname: Sun
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, International Center for Bamboo and Rattan, Beijing 100102, China.
authors.forename: Lichao
authors.initials: L
authors.lastname: Li
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, International Center for Bamboo and Rattan, Beijing 100102, China.
authors.forename: Yongfeng
authors.initials: Y
authors.lastname: Lou
authors.affiliation: Research Institute of Tropical Forestry, Chinese Academy of Forestry, Guangzhou, 510000, China.
authors.forename: Rongsheng
authors.initials: R
authors.lastname: Li
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, International Center for Bamboo and Rattan, Beijing 100102, China.
authors.forename: Lianghua
authors.initials: L
authors.lastname: Qi
authors.affiliation: State Forestry Administration Key Open Laboratory on the Science and Technology of Bamboo and Rattan, International Center for Bamboo and Rattan, Beijing 100102, China.
authors.forename: Zhimin
authors.initials: Z
authors.lastname: Gao
mesh_terms: D028023:Arecaceae / Q000033:anatomy & histology* / Q000235:genetics*; D001483:Base Sequence; D015415:Biomarkers / Q000378:metabolism; D016000:Cluster Analysis; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D005819:Genetic Markers; D018895:Microsatellite Repeats / Q000235:genetics*; D058977:Molecular Sequence Annotation; D011110:Polymorphism, Genetic; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D015203:Reproducibility of Results; D017422:Sequence Analysis, DNA; D059467:Transcriptome / Q000235:genetics*
chemical_list: D015415:Biomarkers; D005819:Genetic Markers