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Transcriptome Sequencing of a Novel Albino Mutant of Hexaploid Sweetpotato

A Correction to this article was published on 13 November 2021

This article has been updated

Abstract

Sweetpotato (Ipomoea batatas L), the herbaceous plant cultivated for its starchy storage roots, has a complex genome (2n = 6x = 90) with the estimated genome size of about 4.5 GB. Albinism, a phenomenon that occurs in plants, is defined as the total pigment loss accompanying with insufficient chloroplast membrane differentiation. For this study, an identified natural albino mutant of Xuzi-8 cultivar was subject to RNA sequencing relative to the green plants of identical cultivar. The results showed that total chlorophyll, chlorophyll a, chlorophyll b, and carotenoids were significantly lower in albino plants than in normal green plants. In addition, the CO2 assimilation rate, intercellular CO2 concentration, conductance level, and transpiration rate were significantly higher in normal green plants than in albino mutants. High-quality reads in the total number of 27,520,273-39,862,794 were obtained following the removal of the potentially contaminated or low-quality reads from the albino-mutant and normal green sweetpotato libraries. Later, sequences were matched with the available online data of Ipomoea batatas, and a very low matching degree (2.22%) was obtained, which indicated the very few available data of Ipomoea batatas genome compared with other plants. Additionally, the obtained unigenes were conducted functional annotations and classification, including GO, KOG, and KEGG analyses. The significance level and DEGs differences between albino-mutant and normal green plants were determined according to the thresholds of FDR ≤ 0.001 and log2 FC ≥ 1. A total of 3000 unigenes were upregulated in albino mutants but normally expressed in normal green plants. These genes were involved in facilitating plant nutrition sources depending on the stored carbohydrates and fats. Furthermore, these unigenes were aligned to the DDP family zinc finger protein, glycerophosphodiester phosphodiesterase, beta-galactosidase, GDE-like, and SELMODRAFT PDDEXK. On the other hand, altogether, 2418 unigenes were downregulated in albino-mutant plants compared with normal green plants, which were responsible for chloroplast differentiation and development, chlorophyll degradation, and synthesis of other pigments. Therefore, they might be related to the defect that caused this mutant.

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Change history

Abbreviations

NGS:

Next-generation sequencing

DEGs:

Differentially expressed genes

GO:

Gene ontology

KOG:

Clusters of orthologous groups of protein

FPKM:

Fragments per kilo base of transcripts per million mapped reads

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Acknowledgements

The present study was funded by the National Key R&D Program of China (2019YFD1001300, 2019YFD1001301), Research project of Jiangsu Province (BK20161162), China Agriculture Research System (CARS-10, Sweetpotato) and the fund for the Jiangsu Province Project Number 221727.

Funding

The present study was funded by the earmarked fund for China Agriculture Research System (CARS-10, sweetpotato) and the fund for the Jiangsu Province Project Number 221727.

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Authors

Contributions

M.H.A., L.Q. and Y. H. were responsible for study design. M.H.A and Y. H. were in charge of experiment implementation, result analysis, figures drawing and manuscript writing. L. Q., Y. H. and M. Q. A. revised the manuscript. T. W., K. M., L. j., and W. X., Z. G. also participated in carrying out experiments.

Corresponding authors

Correspondence to Mohamed Hamed Arisha or Li Qiang.

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All authors declare that they have no competing interest.

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Mohamed Hamed Arisha and Yan Hui were equally contributed to this work.

Key message

The present study applied the high-throughput RNA sequencing technique for discovering genes related to albinism in a naturally induced sweetpotato albino mutant that will enrich the sweetpotato genome repertoire and shed more lights on the different physiological and chemical pathways involved in this phenomenon.

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Arisha, M.H., Hui, Y., Ahmad, M.Q. et al. Transcriptome Sequencing of a Novel Albino Mutant of Hexaploid Sweetpotato. Plant Mol Biol Rep 39, 473–488 (2021). https://doi.org/10.1007/s11105-020-01239-6

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Keywords

  • RNA sequencing
  • Albino mutant
  • Ipomoea batatas
  • Hexaploid sweetpotato
  • Chlorophyll deficiency