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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

``Targeted Sequencing by Gene Synteny,{''} a New Strategy for Polyploid Species: Sequencing and Physical Structure of a Complex Sugarcane Region

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Author(s):
Mancini, Melina C. [1] ; Cardoso-Silva, Claudio B. [1] ; Sforca, Danilo A. [1] ; de Souza, Anete Pereira [1, 2]
Total Authors: 4
Affiliation:
[1] Univ Estadual Campinas, Ctr Mol Biol & Genet Engn, Campinas, SP - Brazil
[2] Univ Estadual Campinas, Biol Inst, Dept Plant Biol, Campinas, SP - Brazil
Total Affiliations: 2
Document type: Journal article
Source: FRONTIERS IN PLANT SCIENCE; v. 9, MAR 28 2018.
Web of Science Citations: 2
Abstract

Sugarcane exhibits a complex genome mainly due to its aneuploid nature and high ploidy level, and sequencing of its genome poses a great challenge. Closely related species with well-assembled and annotated genomes can be used to help assemble complex genomes. Here, a stable quantitative trait locus (QTL) related to sugar accumulation in sorghum was successfully transferred to the sugarcane genome. Gene sequences related to this QTL were identified in silico from sugarcane transcriptome data, and molecularmarkers based on these sequences were developed to select bacterial artificial chromosome (BAC) clones from the sugarcane variety SP80-3280. Sixty-eight BAC clones containing at least two gene sequences associated with the sorghum QTL were sequenced using Pacific Biosciences (PacBio) technology. Twenty BAC sequences were found to be related to the syntenic region, of which nine were sufficient to represent this region. The strategy we propose is called ``targeted sequencing by gene synteny,{''} which is a simpler approach to understanding the genome structure of complex genomic regions associated with traits of interest. (AU)

FAPESP's process: 14/11482-9 - Evaluation of genomic synteny between sorghum (Sorghum bicolor) and sugarcane (Saccharum officinarum): comparision of genes involved in a QTL for Brix in sorghum to syntenic region in sugarcane
Grantee:Melina Cristina Mancini
Support type: Scholarships in Brazil - Post-Doctorate
FAPESP's process: 17/05014-0 - Analysis of genes involved in a QTL for brix in Saccharum species
Grantee:Melina Cristina Mancini
Support type: Scholarships abroad - Research Internship - Post-doctor
FAPESP's process: 08/52197-4 - Genomic-assisted breeding of sugarcane: using molecular markers for understanding the genetic architecture of quantitative traits and to implement marker assisted selection
Grantee:Anete Pereira de Souza
Support type: Program for Research on Bioenergy (BIOEN) - Thematic Grants
FAPESP's process: 15/16399-5 - Balance between dosage and allelic expression to map the global gene expression profile in sugarcane
Grantee:Cláudio Benício Cardoso da Silva
Support type: Scholarships in Brazil - Post-Doctorate