Abstract
Background: Bamboos are perennial grasses classified under family Poaceae and subfamily Bambusoideae and are among the fastest growing plants on earth. Despite ecological and economic significances, Ethiopian lowland bamboo (O. abyssinica) lacks global gene expression under abiotic stress. Methods: Plastic pot germinated seedlings of O. abyssinica were subjected to 200 µm NaCl and 25% PEG-6000 (Poly Ethylene glycol) to induce salt and drought stress, respectively. Using the Illumina sequencing platform, fifteen cDNA libraries were constructed and sequenced to generate the first drought and salt stress transcriptome profiling of the species so as to elucidate genome-wide transcriptome changes in response to such stresses. Results: Following quality control, 754,444,646 clean paired-ends reads were generated, and then de novo assembled into 406,181 unigenes. Functional annotation against the public databases presented annotation of 217,067 (53.4%) unigenes, where NCBI-Nr 203,777, Swissport 115,741, COG 81,632 and KEGG 80,587. Prediction of Transcripts Factors (TFs) have generated 4,332 TFs organized into 64 TF families. Analysis of Differentially Expressed Genes (DEGs) provided 65,471 genes where 569 genes belong to all stresses. Protein families with a higher number of differentially expressed genes include bZIP (49), WRKY (43), MYB (38), AP2/ERF (30), HD-ZIP (25) and MYB related (21). Conclusion: In addition to revealing the genome-wide level appraisal of transcriptome resources of the species, this study also uncovered the comprehensive understanding of key stress responsive protein-coding genes, protein families and pathways which could be used as the basis for further studies.
Highlights
Bambusoideaes are composed of 75 genera and about 1, 250 species of bamboos distributed in a range of environments from tropical and warm ecosystems to cold regions [1]
The result of Illumina paired-end sequencing and de novo assembly of O. abyssinica is presented in Table 1 and the length distribution of 406,181 unigenes is illustrated in Fig. (1)
As there was no genomic and transcriptome information published so far on O. abyssinica, NCBI-Nr blast search of the unigenes was conducted against other species
Summary
Bambusoideaes are composed of 75 genera and about 1, 250 species of bamboos distributed in a range of environments from tropical and warm ecosystems to cold regions [1]. On the basis of morphological habit, Bambusoideaes are classified as woody and herbaceous bamboos [2]. O. Abyssinica grows at an altitude range of 700 - 1,800 m above sea level in the western part of Ethiopia adjacent to Sudanese Savannah Woodlands. The Open Biotechnology Journal, 2019, Volume 13 7 the O. abyssinica. Bamboos are perennial grasses classified under family Poaceae and subfamily Bambusoideae and are among the fastest growing plants on earth. Despite ecological and economic significances, Ethiopian lowland bamboo (O. abyssinica) lacks global gene expression under abiotic stress
Sign-in/Register to view highlights & summary Sign-in/Register to access full text options 
Free) 
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a call
