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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.)

Development of novel EST-SSR markers in the macauba palm (Acrocomia aculeata) using transcriptome sequencing and cross-species transferability in Arecaceae species

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Author(s):
Bazzo, Barbara Regina [1] ; de Carvalho, Lucas Miguel [1] ; Carazzolle, Marcelo Falsarella [1] ; Guimaraes Pereira, Goncalo Amarante [1] ; Colombo, Carlos Augusto [2]
Total Authors: 5
Affiliation:
[1] Univ Estadual Campinas, Inst Biol, Lab Genom & Express, Campinas, SP - Brazil
[2] Agron Inst Sao Paulo IAC, Genet Resources Ctr, Campinas, SP - Brazil
Total Affiliations: 2
Document type: Journal article
Source: BMC PLANT BIOLOGY; v. 18, NOV 12 2018.
Web of Science Citations: 0
Abstract

BackgroundThe macauba palm is a novel feedstock for oil production suitable for multiple uses, including as biodiesel and in the food and cosmetic industries. As an efficient alternative, the macauba palm has limited genomic resources, particularly expressed sequence tag (EST) markers. We report a comprehensive set of validated EST-simple sequence repeat (SSR) markers by using transcriptome sequencing, its application in genetic diversity analysis and cross transferability in other palm trees with environmental and economic importance.ResultsIn this study, a total of 418 EST-SSRs were identified to be unique for one transcript and region; 232 EST-SSRs were selected, with trinucleotide repeats being the most frequent motif, representing 380 (90.9%), followed by composited (4.5%), di- (3.6%), and hexanucleotides (3.6%). A total of 145 EST-SSRs (62.5%) were validated for consistent amplification in seventeen macauba palm samples, and 100 were determined to be polymorphic with PIC values ranging from 0.25 to 0.77. Genetic diversity analysis was performed with the 20 most informative EST-SSR markers showing a distinct separation of the different groups of macauba palm. Additionally, these 145 markers were transferred in six other palm species resulting in transferability rates of 99% (144) in Acrocomia intumescens, 98% (143) in Acrocomia totai, 80.7% (117 EST-EST) in African oil palm (Elaeis guineensis) and peach palm (Bactris gasipaes) samples, 70% (102) in the jucara palm (Euterpe edulis) and 71.7% (104) in the hat palm (Sabal causiarum). Analysis of genetic distance showed a high separation in accordance with geographic location, establishing distinct groups by genera.ConclusionsThe EST markers identified in our study are a valuable resource and provide a genomic tool for genetic mapping and further genetic studies, as well as evaluation of co-location between QTLs and functionally associated markers. (AU)

FAPESP's process: 14/07265-2 - Macawbest: a comprehensive transcriptome of macaúba (Acrocomia aculeata)
Grantee:Bárbara Regina Bazzo
Support type: Scholarships in Brazil - Doctorate
FAPESP's process: 13/08293-7 - CCES - Center for Computational Engineering and Sciences
Grantee:Munir Salomao Skaf
Support type: Research Grants - Research, Innovation and Dissemination Centers - RIDC