Long-Term Waterlogging as Factor Contributing to Hypoxia Stress Tolerance Enhancement in Cucumber: Comparative Transcriptome Analysis of Waterlogging Sensitive and Tolerant Accessions

Kęska, Kinga; Szcześniak, Michał Wojciech; Makałowska, Izabela; Czernicka, Małgorzata

doi:10.3390/genes12020189

Cited by 33 publications

(25 citation statements)

References 108 publications

(136 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The total number of identified lncRNAs was 3738, which accounted for 10% of all identified transcripts (35712) in de novo assembled transcriptomes for unstressed (Ctrl), non-primed, once waterlogged plants (1xH) and primed, twice waterlogged plants (2xH) [ 7 ] ( Supplementary Materials Data S1 ). The largest percentage of lncRNAs (37%) was classified as exonic overlap with reference on the opposite strand (‘x’) and 19% were classified as unknown intergenic transcripts (‘u’) ( Figure 1 a).…”

Section: Resultsmentioning

confidence: 99%

“…From the identified lncRNA molecules, eight were selected and validated with qRT-PCR ( Table 1 ). The selected molecules revealed in the RNAseq data [ 7 ], among others, the opposite regulation in both cucumber accessions in non-primed plants. Additionally, they demonstrated different expression levels between non-primed (1xH) and primed (2xH) in both accessions, which may indicate that these molecules potentially play a role in waterlogging stress tolerance.…”

Section: Resultsmentioning

confidence: 99%

“…Seeds of cucumber double haploid lines, DH2, waterlogging tolerant (WL-T), and DH4, waterlogging sensitive (WL-S), with confirmed response to hypoxia stress [ 7 , 54 ], were obtained from a Polish breeding company KHiNO Polan (Krakow, Poland). Plant cultivation and experiment conditions were the same those described in Kęska et al [ 7 ].…”

Section: Methodsmentioning

confidence: 99%

“…One of the ways to increase stress tolerance in plants is a priming mechanism, i.e., exposure of plants to stress conditions, leading to changes at the physiological and molecular levels, allowing plants to develop a more effective response when faced with another stress induction [ 5 , 6 ]. In our previous work, by priming application, we depicted six genes, i.e., GDSL esterase/lipase, aspartate aminotransferase ( AspAt ), glutamate decarboxylase ( GAD ), sucrose synthase ( SuSy ), triosephosphate isomerase, cytosolic ( TPI ) and expansin-like A1 ( EXP1 ) involved in acquiring tolerance to long-term waterlogging in cucumber [ 7 ]. Regulation of those genes can be mediated by non-coding RNAs (ncRNAs) [ 8 , 9 ], which include, among others, micro RNAs (miRNAs), small interfering RNAs (siRNAs) and long non-coding RNAs (lncRNAs) [ 10 ].…”

Section: Introductionmentioning

confidence: 99%

“…The aim of the study was to identify lncRNAs and miRNAs that participate in response to long-term waterlogging stress in cucumber accessions with confirmed diverse tolerance [ 7 , 54 ]. Additionally, an attempt to identify lncRNAs involved in acquiring tolerance to oxygen deprivation in cucumber through priming application has been made.…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

Waterlogging-Stress-Responsive LncRNAs, Their Regulatory Relationships with miRNAs and Target Genes in Cucumber (Cucumis sativus L.)

Kęska

Szcześniak

Adamus

et al. 2021

IJMS

Self Cite

View full text Add to dashboard Cite

Low oxygen level is a phenomenon often occurring during the cucumber cultivation period. Genes involved in adaptations to stress can be regulated by non-coding RNA. The aim was the identification of long non-coding RNAs (lncRNAs) involved in the response to long-term waterlogging stress in two cucumber haploid lines, i.e., DH2 (waterlogging tolerant—WL-T) and DH4 (waterlogging sensitive—WL-S). Plants, at the juvenile stage, were waterlogged for 7 days (non-primed, 1xH), and after a 14-day recovery period, plants were stressed again for another 7 days (primed, 2xH). Roots were collected for high-throughput RNA sequencing. Implementation of the bioinformatic pipeline made it possible to determine specific lncRNAs for non-primed and primed plants of both accessions, highlighting differential responses to hypoxia stress. In total, 3738 lncRNA molecules were identified. The highest number (1476) of unique lncRNAs was determined for non-primed WL-S plants. Seventy-one lncRNAs were depicted as potentially being involved in acquiring tolerance to hypoxia in cucumber. Understanding the mechanism of gene regulation under long-term waterlogging by lncRNAs and their interactions with miRNAs provides sufficient information in terms of adaptation to the oxygen deprivation in cucumber. To the best of our knowledge, this is the first report concerning the role of lncRNAs in the regulation of long-term waterlogging tolerance by priming application in cucumber.

show abstract

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%