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Article

Analyzing Differentially Expressed Genes and Pathways Associated with Pistil Abortion in Japanese Apricot via RNA-Seq

by
Ting Shi
1,†,
Shahid Iqbal
1,2,†,
Aliya Ayaz
3,†,
Yang Bai
1,
Zhenpeng Pan
1,
Xiaopeng Ni
1,
Faisal Hayat
1,
Muhammad Saqib Bilal
4,
Muhammad Khuram Razzaq
5 and
Zhihong Gao
1,*
1
Laboratory of Fruit Tree Biotechnology, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
2
Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, No. 50 Zhongling Street, Nanjing 210014, China
3
State Key Laboratory of Crop Genetics and Germplasm Enhancement, Ministry of Science and Technology, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
4
Key Laboratory of Integrated Management of Crop Diseases and Pests, College of Plant Protection, Nanjing Agricultural University, Nanjing 210095, China
5
Soybean Research Institute, National Centre for Soybean Improvement, Nanjing Agricultural University, Nanjing 210095, China
*
Author to whom correspondence should be addressed.
†
These authors contributed equally in this work.
Genes 2020, 11(9), 1079; https://doi.org/10.3390/genes11091079
Submission received: 31 August 2020 / Accepted: 9 September 2020 / Published: 15 September 2020
(This article belongs to the Special Issue Multi-Omics Approaches and Computational Biology in Fruit Trees)
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Abstract

Reproduction is a critical stage in the flower development process, and its failure causes serious problems affecting fruit quality and yield. Pistil abortion is one of the main factors in unsuccessful reproduction and occurs in many fruit plants. In Japanese apricot, the problem of pistil abortion is very common and affects fruit quality and plant yield; however, its molecular mechanism is not clearly understood. Therefore, in the current study, we used RNA-Seq to identify the differentially expressed genes (DEGs) and pathways actively involved in pistil abortion. A total of 3882 differentially expressed genes were found after cutoff and pairwise comparison analysis. According to KEGG pathway analysis, plant hormone signaling transduction and metabolic pathways were found most significantly enriched in this study. A total of 60 transcription factor families such as MADS-box, NAC and TCP showed their role in this process. RT-qPCR assays confirmed that the expression levels were consistent with RNA-Seq results. This study provides an alternative to be considered for further studies and understanding of pistil abortion processes in Japanese apricot, and it provides a reference related to this issue for other deciduous fruit crops.
Keywords: pistil abortion; Japanese apricot; RNA-Seq; hormone signaling; metabolic pathways pistil abortion; Japanese apricot; RNA-Seq; hormone signaling; metabolic pathways

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MDPI and ACS Style

Shi, T.; Iqbal, S.; Ayaz, A.; Bai, Y.; Pan, Z.; Ni, X.; Hayat, F.; Saqib Bilal, M.; Khuram Razzaq, M.; Gao, Z. Analyzing Differentially Expressed Genes and Pathways Associated with Pistil Abortion in Japanese Apricot via RNA-Seq. Genes 2020, 11, 1079. https://doi.org/10.3390/genes11091079

AMA Style

Shi T, Iqbal S, Ayaz A, Bai Y, Pan Z, Ni X, Hayat F, Saqib Bilal M, Khuram Razzaq M, Gao Z. Analyzing Differentially Expressed Genes and Pathways Associated with Pistil Abortion in Japanese Apricot via RNA-Seq. Genes. 2020; 11(9):1079. https://doi.org/10.3390/genes11091079

Chicago/Turabian Style

Shi, Ting, Shahid Iqbal, Aliya Ayaz, Yang Bai, Zhenpeng Pan, Xiaopeng Ni, Faisal Hayat, Muhammad Saqib Bilal, Muhammad Khuram Razzaq, and Zhihong Gao. 2020. "Analyzing Differentially Expressed Genes and Pathways Associated with Pistil Abortion in Japanese Apricot via RNA-Seq" Genes 11, no. 9: 1079. https://doi.org/10.3390/genes11091079

APA Style

Shi, T., Iqbal, S., Ayaz, A., Bai, Y., Pan, Z., Ni, X., Hayat, F., Saqib Bilal, M., Khuram Razzaq, M., & Gao, Z. (2020). Analyzing Differentially Expressed Genes and Pathways Associated with Pistil Abortion in Japanese Apricot via RNA-Seq. Genes, 11(9), 1079. https://doi.org/10.3390/genes11091079

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