Dataset Information

Data describing Upland cotton cultivars and advanced breeding lines used in Colombia.

ABSTRACT: In the last century, more than a hundred of cultivars were used in the cotton production system in Colombia. Breeding for cultivars adapted to tropical environments had been the main purpose of the Colombian agricultural research institutions dedicated to cotton. Data describing yield and fiber quality traits of these cultivars (and the introduced ones mainly from USA) is scattered across grey literature which reduces chances of discovering, accessing and assessing this information.This data article contains databases describing i) Colombian and introduced Upland cotton cultivars used in Colombia and ii) ramulosis-resistance scores of lines developed by the Colombian breeding program. The first database was constructed from data extracted from grey literature mainly produced by ICA and CORPOICA (rebranded today as AGROSAVIA), the Colombian agricultural research agencies. The second one describes the Cereté lines (LCER) database. These advanced breeding lines were developed for improved yield performance in tropical environments, specifically monsoon and savanna climates. The LCER dataset also describes the ramulosis field resistance of these cultivars. Ramulosis is an endemic disease in South America caused by Colletotrichum gossypii var. cephalosporioides. The data in this article supports and augments information presented in the research articles [1]: and [3].

SUBMITTER: Burbano-Figueroa O

PROVIDER: S-EPMC6595403 | biostudies-literature | 2019 Aug

REPOSITORIES: biostudies-literature

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Data describing Upland cotton cultivars and advanced breeding lines used in Colombia.

Burbano-Figueroa Oscar O Montes-Mercado Karen Sofia KS

Data in brief 20190611

In the last century, more than a hundred of cultivars were used in the cotton production system in Colombia. Breeding for cultivars adapted to tropical environments had been the main purpose of the Colombian agricultural research institutions dedicated to cotton. Data describing yield and fiber quality traits of these cultivars (and the introduced ones mainly from USA) is scattered across grey literature which reduces chances of discovering, accessing and assessing this information.This data art ...[more]

PMID: 31294069

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Project description:BackgroundHow to develop new cotton varieties possessing high yield traits of Upland cotton and superior fiber quality traits of Sea Island cotton remains a key task for cotton breeders and researchers. While multiple attempts bring in little significant progresses, the development of Chromosome Segment Substitution Lines (CSSLs) from Gossypium barbadense in G. hirsutum background provided ideal materials for aforementioned breeding purposes in upland cotton improvement. Based on the excellent fiber performance and relatively clear chromosome substitution segments information identified by Simple Sequence Repeat (SSR) markers, two CSSLs, MBI9915 and MBI9749, together with the recurrent parent CCRI36 were chosen to conduct transcriptome sequencing during the development stages of fiber elongation and Secondary Cell Wall (SCW) synthesis (from 10DPA and 28DPA), aiming at revealing the mechanism of fiber development and the potential contribution of chromosome substitution segments from Sea Island cotton to fiber development of Upland cotton.ResultsIn total, 15 RNA-seq libraries were constructed and sequenced separately, generating 705.433 million clean reads with mean GC content of 45.13% and average Q30 of 90.26%. Through multiple comparisons between libraries, 1801 differentially expressed genes (DEGs) were identified, of which the 902 up-regulated DEGs were mainly involved in cell wall organization and response to oxidative stress and auxin, while the 898 down-regulated ones participated in translation, regulation of transcription, DNA-templated and cytoplasmic translation based on GO annotation and KEGG enrichment analysis. Subsequently, STEM software was performed to explicate the temporal expression pattern of DEGs. Two peroxidases and four flavonoid pathway-related genes were identified in the "oxidation-reduction process", which could play a role in fiber development and quality formation. Finally, the reliability of RNA-seq data was validated by quantitative real-time PCR of randomly selected 20 genes.ConclusionsThe present report focuses on the similarities and differences of transcriptome profiles between the two CSSLs and the recurrent parent CCRI36 and provides novel insights into the molecular mechanism of fiber development, and into further exploration of the feasible contribution of G. barbadense substitution segments to fiber quality formation, which will lay solid foundation for simultaneously improving fiber yield and quality of upland cotton through CSSLs.

Dataset Information

Data describing Upland cotton cultivars and advanced breeding lines used in Colombia.

Publications

Data describing Upland cotton cultivars and advanced breeding lines used in Colombia.

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