Cotton functional genomics reveals global insight into genome evolution and fiber development

Wu, Zhiguo; Yang, Yan; Huang, Gai; Lin, Jing; Xia, Yuying; Zhu, Yu-Xian

doi:10.1016/j.jgg.2017.09.009

Cited by 26 publications

(12 citation statements)

References 64 publications

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“…There was a significant difference in the expression levels of various tissues, which is consistent with the previous studies on expression character of other Bt genes. This study confirmed that the insecticidal effect of Cry5Aa transgenic lines on cotton bollworm and their insect resistances had a tendency to decrease along with the growth and development process of cotton plants 12 – 14 .…”

Section: Discussionsupporting

confidence: 78%

Transformation and functional verification of Cry5Aa in cotton

Zhao

Wang

Zhang

et al. 2021

Sci Rep

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Most of the cotton bollworm-resistant genes applied in cotton are more than 20 years and they all belong to Cry1Ab/c family, but the insect-resistant effects of Cry5Aa on cotton were rarely reported. The possible risk of resistance is increasing. The study synthesized a novel bollworm-resistant gene Cry5Aa artificially based on preferences of cotton codon. The new gene was transferred to cotton through the method of pollen tube pathway. The transgenic strains were identified by kanamycin test in field and laboratory PCR analysis. Meanwhile, an insect resistance test was conducted by artificial bollworm feeding with transgenic leaves and GK19 was used as a control in this study. Results showed that rate of positive transgenic strains with kanamycin resistance in the first generation (T1), the second generation (T2) and the third generation (T3) respectively were 7.76%, 73.1% and 95.5%. However, PCR analysis showed that the positive strain rate in T1, T2 and T3 were 2.35%, 55.8% and 94.5%, respectively. The resistant assay of cotton bollworm showed that the mortality rate of the second, third and fourth instar larva feed by the transgenic cotton leaves, were 85.42%, 73.35% and 62.79%, respectively. There was a significant difference between transgenic plant of Cry5Aa and GK19 in insect resistance. Finally, we also conducted the further analysis of gene expression patterns, gene flow and the effect on non-target pest in the study. The results showed that Cry5Aa gene had less environmental impact, and Cry5Aa has been transferred successfully and expressed stably in cotton. Therefore, the novel bollworm resistance gene can partially replace the current insect-resistance gene of Lepidoptera insects.

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Section: Discussionsupporting

confidence: 78%

Transformation and functional verification of Cry5Aa in cotton

Zhao

Wang

Zhang

et al. 2021

Sci Rep

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“…Whereas, the timing of insertion for LTRs was peaked within 1.9 Mya in D t and approximately 3.1 Mya ago in A t (Yuan et al, 2015). The above research suggested that the most expansions of extant LTRs independently occurred after the lineage separation but before tetraploidization (Wu et al, 2017). The two-fold expansion of A 1 and A 2 -genomes and the G. hirsutum A t1 -subgenome was found to be highly correlated to TE bursts.…”

Section: Expansion Of Transposable Elementsmentioning

confidence: 80%

Sequencing Multiple Cotton Genomes Reveals Complex Structures and Lays Foundation for Breeding

2020

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Cotton is a major fiber plant, which provides raw materials for clothing, protecting humans from the harsh environment of cold or hot weathers, enriching the culture and custom of human societies. Due to its importance, the diploid and tetraploid genomes of different cotton plants have been repeatedly sequenced to obtain their complete and fine genome sequences. These valuable genome data sets revealed the evolutionary past of the cotton plants, which were recursively affected by polyploidization, with a decaploidization contributing to the formation of the genus Gossypium, and a neo-tetraploidization contributing to the formation of nowadays widely cultivated cotton plants. Postpolyploidization genome instability resulted in numerous structural changes of the genomes, such as gene loss, DNA inversion and translocation, illegitimate recombination, and accumulation of repetitive sequences, and functional innovation accompanied by elevated evolutionary rates of genes. Many these changes have been asymmetric between subgnomes of the tetraploid cottons, rendering their divergent profiles of biological regulation and function. The availability of whole-genome sequences has now paved the way to identify and clone functional genes, e.g., those relating to fiber development, and to enhance breeding efforts to cultivate cottons to produce high-yield and high-quality fibers, and to resist environmental and biological stress.

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“…The annotated TE information obtained by genome‐assembly studies and deposited in various databases represents an excellent platform for studying the biological activities of TEs (Wang et al ; Wu et al ). However, no systematic studies have examined TE expression, the chromatin binding affinity of expressed TEs, and their potential involvement in regulating gene transcription.…”

Section: Introductionmentioning

confidence: 99%

Analysis of the chromatin binding affinity of retrotransposases reveals novel roles in diploid and tetraploid cotton

Lin

Cai

Huang

et al. 2019

JIPB

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LTR‐retrotransposable elements are major components of diploid (Gossypium arboreum) and tetraploid (Gossypium hirsutum) cotton genomes that have undergone dramatic increases in copy number during the course of evolution. However, little is known about the biological functions of LTR‐retrotransposable elements in cotton. Here, we show that a copia‐like LTR‐retrotransposable element has maintained considerable activity in both G. arboreum and G. hirsutum. We identified two functional domains of the retrotransposon and analyzed their expression levels in various cotton tissues, including leaves, ovules, and germinating seeds. ChIP‐qPCR (chromatin immunoprecipitation followed by quantitative PCR), using a copia‐specific antibody, established that copia‐like proteins primarily bind to the first exons of several protein‐coding genes in cotton cells. This finding suggests that retrotransposons play a novel, important role in regulating the transcriptional activities of protein‐coding genes with various biological activities.

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Cotton functional genomics reveals global insight into genome evolution and fiber development

Cited by 26 publications

References 64 publications

Transformation and functional verification of Cry5Aa in cotton

Transformation and functional verification of Cry5Aa in cotton

Sequencing Multiple Cotton Genomes Reveals Complex Structures and Lays Foundation for Breeding

Analysis of the chromatin binding affinity of retrotransposases reveals novel roles in diploid and tetraploid cotton

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