Genome-wide expression analysis of novel heat-responsive microRNAs and their targets in contrasting wheat genotypes at reproductive stage under terminal heat stress
IntroductionHeat stress at terminal stage of wheat is critical and leads to huge yield losses worldwide. microRNAs (miRNAs) play significant regulatory roles in gene expression associated with abiotic and biotic stress at the post-transcriptional level.MethodsIn the present study, we carried out a c...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2024-04-01
|
| Series: | Frontiers in Plant Science |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2024.1328114/full |
| _version_ | 1797215817039872000 |
|---|---|
| author | Monika Saroha Monika Saroha Aditi Arya Gyanendra Singh Pradeep Sharma |
| author_facet | Monika Saroha Monika Saroha Aditi Arya Gyanendra Singh Pradeep Sharma |
| author_sort | Monika Saroha |
| collection | DOAJ |
| description | IntroductionHeat stress at terminal stage of wheat is critical and leads to huge yield losses worldwide. microRNAs (miRNAs) play significant regulatory roles in gene expression associated with abiotic and biotic stress at the post-transcriptional level.MethodsIn the present study, we carried out a comparative analysis of miRNAs and their targets in flag leaves as well as developing seeds of heat tolerant (RAJ3765) and heat susceptible (HUW510) wheat genotypes under heat stress and normal conditions using small RNA and degradome sequencing.Results and discussion A total of 84 conserved miRNAs belonging to 35 miRNA families and 93 novel miRNAs were identified in the 8 libraries. Tae-miR9672a-3p, tae-miR9774, tae-miR9669-5p, and tae-miR5048-5p showed the highest expression under heat stress. Tae-miR9775, tae-miR9662b-3p, tae-miR1120a, tae-miR5084, tae-miR1122a, tae-miR5085, tae-miR1118, tae-miR1130a, tae-miR9678-3p, tae-miR7757-5p, tae-miR9668-5p, tae-miR5050, tae-miR9652-5p, and tae-miR9679-5p were expressed only in the tolerant genotype, indicating their role in heat tolerance. Comparison between heat-treated and control groups revealed that 146 known and 57 novel miRNAs were differentially expressed in the various tissues. Eight degradome libraries sequence identified 457 targets of the differentially expressed miRNAs. Functional analysis of the targets indicated their involvement in photosynthesis, spliceosome, biosynthesis of nucleotide sugars and protein processing in the endoplasmic reticulum, arginine and proline metabolism and endocytosis. ConclusionThis study increases the number of identified and novel miRNAs along with their roles involved in heat stress response in contrasting genotypes at two developing stages of wheat. |
| first_indexed | 2024-04-24T11:36:05Z |
| format | Article |
| id | doaj.art-3fe948761e554635be98ccc9874b5438 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-24T11:36:05Z |
| publishDate | 2024-04-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-3fe948761e554635be98ccc9874b54382024-04-10T05:10:42ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2024-04-011510.3389/fpls.2024.13281141328114Genome-wide expression analysis of novel heat-responsive microRNAs and their targets in contrasting wheat genotypes at reproductive stage under terminal heat stressMonika Saroha0Monika Saroha1Aditi Arya2Gyanendra Singh3Pradeep Sharma4Department of Biotechnology, ICAR Indian Institute of Wheat and Barley Research, Karnal, Haryana, IndiaDepartment of Biotechnology, Deenbandhu Chhotu Ram University of Science and Technology, Murthal, Haryana, IndiaDepartment of Biotechnology, Deenbandhu Chhotu Ram University of Science and Technology, Murthal, Haryana, IndiaDepartment of Biotechnology, ICAR Indian Institute of Wheat and Barley Research, Karnal, Haryana, IndiaDepartment of Biotechnology, ICAR Indian Institute of Wheat and Barley Research, Karnal, Haryana, IndiaIntroductionHeat stress at terminal stage of wheat is critical and leads to huge yield losses worldwide. microRNAs (miRNAs) play significant regulatory roles in gene expression associated with abiotic and biotic stress at the post-transcriptional level.MethodsIn the present study, we carried out a comparative analysis of miRNAs and their targets in flag leaves as well as developing seeds of heat tolerant (RAJ3765) and heat susceptible (HUW510) wheat genotypes under heat stress and normal conditions using small RNA and degradome sequencing.Results and discussion A total of 84 conserved miRNAs belonging to 35 miRNA families and 93 novel miRNAs were identified in the 8 libraries. Tae-miR9672a-3p, tae-miR9774, tae-miR9669-5p, and tae-miR5048-5p showed the highest expression under heat stress. Tae-miR9775, tae-miR9662b-3p, tae-miR1120a, tae-miR5084, tae-miR1122a, tae-miR5085, tae-miR1118, tae-miR1130a, tae-miR9678-3p, tae-miR7757-5p, tae-miR9668-5p, tae-miR5050, tae-miR9652-5p, and tae-miR9679-5p were expressed only in the tolerant genotype, indicating their role in heat tolerance. Comparison between heat-treated and control groups revealed that 146 known and 57 novel miRNAs were differentially expressed in the various tissues. Eight degradome libraries sequence identified 457 targets of the differentially expressed miRNAs. Functional analysis of the targets indicated their involvement in photosynthesis, spliceosome, biosynthesis of nucleotide sugars and protein processing in the endoplasmic reticulum, arginine and proline metabolism and endocytosis. ConclusionThis study increases the number of identified and novel miRNAs along with their roles involved in heat stress response in contrasting genotypes at two developing stages of wheat.https://www.frontiersin.org/articles/10.3389/fpls.2024.1328114/fullTriticum aestivumdegradomedeveloping seedflag leafheat stressmiRNA |
| spellingShingle | Monika Saroha Monika Saroha Aditi Arya Gyanendra Singh Pradeep Sharma Genome-wide expression analysis of novel heat-responsive microRNAs and their targets in contrasting wheat genotypes at reproductive stage under terminal heat stress Frontiers in Plant Science Triticum aestivum degradome developing seed flag leaf heat stress miRNA |
| title | Genome-wide expression analysis of novel heat-responsive microRNAs and their targets in contrasting wheat genotypes at reproductive stage under terminal heat stress |
| title_full | Genome-wide expression analysis of novel heat-responsive microRNAs and their targets in contrasting wheat genotypes at reproductive stage under terminal heat stress |
| title_fullStr | Genome-wide expression analysis of novel heat-responsive microRNAs and their targets in contrasting wheat genotypes at reproductive stage under terminal heat stress |
| title_full_unstemmed | Genome-wide expression analysis of novel heat-responsive microRNAs and their targets in contrasting wheat genotypes at reproductive stage under terminal heat stress |
| title_short | Genome-wide expression analysis of novel heat-responsive microRNAs and their targets in contrasting wheat genotypes at reproductive stage under terminal heat stress |
| title_sort | genome wide expression analysis of novel heat responsive micrornas and their targets in contrasting wheat genotypes at reproductive stage under terminal heat stress |
| topic | Triticum aestivum degradome developing seed flag leaf heat stress miRNA |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2024.1328114/full |
| work_keys_str_mv | AT monikasaroha genomewideexpressionanalysisofnovelheatresponsivemicrornasandtheirtargetsincontrastingwheatgenotypesatreproductivestageunderterminalheatstress AT monikasaroha genomewideexpressionanalysisofnovelheatresponsivemicrornasandtheirtargetsincontrastingwheatgenotypesatreproductivestageunderterminalheatstress AT aditiarya genomewideexpressionanalysisofnovelheatresponsivemicrornasandtheirtargetsincontrastingwheatgenotypesatreproductivestageunderterminalheatstress AT gyanendrasingh genomewideexpressionanalysisofnovelheatresponsivemicrornasandtheirtargetsincontrastingwheatgenotypesatreproductivestageunderterminalheatstress AT pradeepsharma genomewideexpressionanalysisofnovelheatresponsivemicrornasandtheirtargetsincontrastingwheatgenotypesatreproductivestageunderterminalheatstress |