Expressional profiling of circRNAs under PEG and NaCl stresses in germinated moso bamboo seeds

doi:10.12302/j.issn.1000-2006.202204063

JOURNAL OF NANJING FORESTRY UNIVERSITY ›› 2023, Vol. 47 ›› Issue (6): 17-24.doi: 10.12302/j.issn.1000-2006.202204063

Special Issue: “攥紧中国种子”视域下的中国林草种业研究专题Ⅱ

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Expressional profiling of circRNAs under PEG and NaCl stresses in germinated moso bamboo seeds

WANG Xiaojing¹^,²(), WANG Tao³, YANG Kai⁴, LI Lubin¹^,^*()

1. State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of the National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China
2. Yuncheng University, Yuncheng 044011, China
3. Beijing Laboratory of Urban and Rural Ecological Environment, Beijing Floriculture Engineering Technology Research Centre, Beijing Botanical Garden, Beijing 100093, China
4. College of Plant Science and Technology, Beijing Agriculture University, Beijing 100096, China

Received:2022-04-27 Revised:2022-06-27 Online:2023-11-30 Published:2023-11-23

Abstract

Abstract:

【Objective】 Circular RNAs (circRNAs) are a class of endogenous non-coding RNA produced by reverse alternative splicing of transcripts, which play crucial roles in plant growth and development. This study aimed to identify circRNAs in germinated seeds of moso bamboo (Phyllostachys edulis), and investigate their expression under drought and salt stress conditions, providing a foundation for exploring the molecular regulation mechanism of bamboo seed germination under abiotic stress resistance. 【Method】 polyethylene glycol (PEG) 6000 and NaCl were used to simulate drought and salt stress, respectively. The strand specific libraries were constructed for moso bamboo seeds samples at the seed coat rupture stage under treatments of H₂O, 10% (mass fraction) PEG, 15% PEG, 50 and 100 mol/L NaCl. High throughout sequencing and biological information analysis were used to identify and analysis the expressional pattern of circRNAs. 【Result】 A total of 1 446 circRNAs were identified in all samples, with 76.34% of circRNAs originating from exon region; The circRNAs with the highest expression levels in bamboo germinating seeds under different treatments were identified as plant_ circ_ 0001703, plant_ circ_ 0001728, plant_ circ_ 0000358, plant_ circ_ 0001236 and plant_ circ_ 0001728;Compared with control, 524, 505, 467 and 474 circRNAs were significantly differentially expressed in germinating seeds under the four stress treatments. The original genes of differentially expressed circRNAs were significantly enriched in various GO and KEGG pathways. 【Conclusion】 A total of 1 446 circRNAs were found to be expressed in moso bamboo germinating seeds, with 1 056 circRNAs responding to drought or salinity stresses during seed germination. Genes involved in acylhydrolase enzyme activity and sphingolipid metabolism pathways may play a crucial role in regulating bamboo seed germination under PEG or NaCl stress conditions.

Key words: moso bamboo, germination, polyethylese glycol (PEG), NaCl, circRNAs

CLC Number:

S795

WANG Xiaojing, WANG Tao, YANG Kai, LI Lubin. Expressional profiling of circRNAs under PEG and NaCl stresses in germinated moso bamboo seeds[J]. JOURNAL OF NANJING FORESTRY UNIVERSITY, 2023, 47(6): 17-24.

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样品 sample	原始读序对数 raw reads pairs	过滤后读序对数 clean reads pairs	Q20/%	Q30/%	GC含量/% GC content	clean reads比对率/% mapping rate of clean reads
A1	53 299 336	53 115 622	98.9;98.4	96.6;95.3	52.5;53.4	82.16
B1	59 263 271	58 962 390	98.5;98.1	95.8;94.5	53.1;53.7	83.56
C1	51 634 439	51 456 574	98.8;98.4	96.5;95.3	52.4;53.2	84.98
D1	51 121 342	50 943 632	98.8;98.4	96.6;95.2	52.6;53.4	77.70
E1	51 241 315	51 068 350	98.8;98.5	96.5;95.4	53.0;53.7	81.93

Expressional profiling of circRNAs under PEG and NaCl stresses in germinated moso bamboo seeds

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