PMID- 23379821
OWN - NLM
STAT- MEDLINE
DCOM- 20131024
LR  - 20240321
IS  - 1471-2164 (Electronic)
IS  - 1471-2164 (Linking)
VI  - 14
DP  - 2013 Feb 5
TI  - Analysis of the leaf transcriptome of Musa acuminata during interaction with 
      Mycosphaerella musicola: gene assembly, annotation and marker development.
PG  - 78
LID - 10.1186/1471-2164-14-78 [doi]
AB  - BACKGROUND: Although banana (Musa sp.) is an important edible crop, contributing 
      towards poverty alleviation and food security, limited transcriptome datasets are 
      available for use in accelerated molecular-based breeding in this genus. 454 
      GS-FLX Titanium technology was employed to determine the sequence of gene 
      transcripts in genotypes of Musa acuminata ssp. burmannicoides Calcutta 4 and M. 
      acuminata subgroup Cavendish cv. Grande Naine, contrasting in resistance to the 
      fungal pathogen Mycosphaerella musicola, causal organism of Sigatoka leaf spot 
      disease. To enrich for transcripts under biotic stress responses, full 
      length-enriched cDNA libraries were prepared from whole plant leaf materials, 
      both uninfected and artificially challenged with pathogen conidiospores. RESULTS: 
      The study generated 846,762 high quality sequence reads, with an average length 
      of 334 bp and totalling 283 Mbp. De novo assembly generated 36,384 and 35,269 
      unigene sequences for M. acuminata Calcutta 4 and Cavendish Grande Naine, 
      respectively. A total of 64.4% of the unigenes were annotated through Basic Local 
      Alignment Search Tool (BLAST) similarity analyses against public 
      databases.Assembled sequences were functionally mapped to Gene Ontology (GO) 
      terms, with unigene functions covering a diverse range of molecular functions, 
      biological processes and cellular components. Genes from a number of 
      defense-related pathways were observed in transcripts from each cDNA library. 
      Over 99% of contig unigenes mapped to exon regions in the reference M. acuminata 
      DH Pahang whole genome sequence. A total of 4068 genic-SSR loci were identified 
      in Calcutta 4 and 4095 in Cavendish Grande Naine. A subset of 95 potential 
      defense-related gene-derived simple sequence repeat (SSR) loci were validated for 
      specific amplification and polymorphism across M. acuminata accessions. Fourteen 
      loci were polymorphic, with alleles per polymorphic locus ranging from 3 to 8 and 
      polymorphism information content ranging from 0.34 to 0.82. CONCLUSIONS: A large 
      set of unigenes were characterized in this study for both M. acuminata Calcutta 4 
      and Cavendish Grande Naine, increasing the number of public domain Musa ESTs. 
      This transcriptome is an invaluable resource for furthering our understanding of 
      biological processes elicited during biotic stresses in Musa. Gene-based markers 
      will facilitate molecular breeding strategies, forming the basis of genetic 
      linkage mapping and analysis of quantitative trait loci.
FAU - Passos, Marco A N
AU  - Passos MA
AD  - Universidade de Brasilia, Campus Universitario Darcy Ribeiro, Instituto de 
      Ciencias Biologicas, Departamento de Biologia Celular, CEP 70,910-900, Brasilia, 
      D,F, Brazil.
FAU - de Cruz, Viviane Oliveira
AU  - de Cruz VO
FAU - Emediato, Flavia L
AU  - Emediato FL
FAU - de Teixeira, Cristiane Camargo
AU  - de Teixeira CC
FAU - Azevedo, Vania C Renno
AU  - Azevedo VC
FAU - Brasileiro, Ana C M
AU  - Brasileiro AC
FAU - Amorim, Edson P
AU  - Amorim EP
FAU - Ferreira, Claudia F
AU  - Ferreira CF
FAU - Martins, Natalia F
AU  - Martins NF
FAU - Togawa, Roberto C
AU  - Togawa RC
FAU - Junior, Georgios J Pappas
AU  - Junior GJ
FAU - da Silva, Orzenil Bonfim Jr
AU  - da Silva OB Jr
FAU - Miller, Robert N G
AU  - Miller RN
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20130205
PL  - England
TA  - BMC Genomics
JT  - BMC genomics
JID - 100965258
SB  - IM
MH  - Ascomycota/genetics
MH  - Databases, Genetic
MH  - Gene Expression Profiling
MH  - Gene Expression Regulation, Plant
MH  - Gene Library
MH  - Microsatellite Repeats
MH  - Molecular Sequence Annotation
MH  - Musa/*genetics
MH  - Plant Diseases/genetics/microbiology
MH  - Plant Leaves/*genetics
MH  - Transcriptome
PMC - PMC3635893
EDAT- 2013/02/06 06:00
MHDA- 2013/10/25 06:00
PMCR- 2013/02/05
CRDT- 2013/02/06 06:00
PHST- 2012/07/16 00:00 [received]
PHST- 2013/02/01 00:00 [accepted]
PHST- 2013/02/06 06:00 [entrez]
PHST- 2013/02/06 06:00 [pubmed]
PHST- 2013/10/25 06:00 [medline]
PHST- 2013/02/05 00:00 [pmc-release]
AID - 1471-2164-14-78 [pii]
AID - 10.1186/1471-2164-14-78 [doi]
PST - epublish
SO  - BMC Genomics. 2013 Feb 5;14:78. doi: 10.1186/1471-2164-14-78.