PMID- 29982475
OWN - NLM
STAT- MEDLINE
DCOM- 20191010
LR  - 20200306
IS  - 1095-8290 (Electronic)
IS  - 0305-7364 (Print)
IS  - 0305-7364 (Linking)
VI  - 122
IP  - 7
DP  - 2018 Dec 31
TI  - Origin and parental genome characterization of the allotetraploid Stylosanthes 
      scabra Vogel (Papilionoideae, Leguminosae), an important legume pasture crop.
PG  - 1143-1159
LID - 10.1093/aob/mcy113 [doi]
AB  - BACKGROUNDS AND AIMS: The genus Stylosanthes includes nitrogen-fixing and 
      drought-tolerant species of considerable economic importance for perennial 
      pasture, green manure and land recovery. Stylosanthes scabra is adapted to 
      variable soil conditions, being cultivated to improve pastures and soils 
      worldwide. Previous studies have proposed S. scabra as an allotetraploid species 
      (2n = 40) with a putative diploid A genome progenitor S. hamata or S. seabrana 
      (2n = 20) and the B genome progenitor S. viscosa (2n = 20). We aimed to provide 
      conclusive evidence for the origin of S. scabra. METHODS: We performed 
      fluorescence in situ hybridization (FISH) and genomic in situ hybridization 
      (GISH) experiments and Illumina paired-end sequencing of S. scabra, S. hamata and 
      S. viscosa genomic DNA, to assemble and compare complete ribosomal DNA (rDNA) 
      units and chloroplast genomes. Plastome- and genome-wide single nucleotide 
      variation detection was also performed. KEY RESULTS: GISH and phylogenetic 
      analyses of plastid DNA and rDNA sequences support that S. scabra is an 
      allotetraploid formed from 0.63 to 0.52 million years ago (Mya), from progenitors 
      with a similar genome structure to the maternal donor S. hamata and the paternal 
      donor S. viscosa. FISH revealed a non-additive number of 35S rDNA sites in S. 
      scabra compared with its progenitors, indicating the loss of one locus from A 
      genome origin. In S. scabra, most 5S rDNA units were similar to S. viscosa, while 
      one 5S rDNA site of reduced size most probably came from an A genome species as 
      revealed by GISH and in silico analysis. CONCLUSIONS: Our approach combined 
      whole-plastome and rDNA assembly with additional cytogenetic analysis to shed 
      light successfully on the allotetraploid origin of S. scabra. We propose a Middle 
      Pleistocene origin for S. scabra involving species with maternal A and paternal B 
      genomes. Our data also suggest that variation found in rDNA units in S. scabra 
      and its progenitors reveals differences that can be explained by homogenization, 
      deletion and amplification processes that have occurred since its origin.
FAU - Marques, Andre
AU  - Marques A
AD  - Laboratory of Genetic Resources, Federal University of Alagoas, Arapiraca, AL, 
      Brazil.
FAU - Moraes, Livia
AU  - Moraes L
AD  - Laboratory of Plant Cytogenetics and Evolution, Department of Botany, Federal 
      University of Pernambuco, Recife, Brazil.
FAU - Aparecida Dos Santos, Maria
AU  - Aparecida Dos Santos M
AD  - Laboratory of Genetic Resources, Federal University of Alagoas, Arapiraca, AL, 
      Brazil.
FAU - Costa, Iara
AU  - Costa I
AD  - Laboratory of Genetic Resources, Federal University of Alagoas, Arapiraca, AL, 
      Brazil.
FAU - Costa, Lucas
AU  - Costa L
AD  - Laboratory of Plant Cytogenetics and Evolution, Department of Botany, Federal 
      University of Pernambuco, Recife, Brazil.
FAU - Nunes, Tomaz
AU  - Nunes T
AD  - Laboratory of Genetic Resources, Federal University of Alagoas, Arapiraca, AL, 
      Brazil.
FAU - Melo, Natoniel
AU  - Melo N
AD  - Laboratory of Biotechnology, Embrapa Semi-arid, Petrolina, Brazil.
FAU - Simon, Marcelo F
AU  - Simon MF
AD  - Embrapa CENARGEN, Brasilia, Brazil.
FAU - Leitch, Andrew R
AU  - Leitch AR
AD  - Queen Mary University of London, London, UK.
FAU - Almeida, Cicero
AU  - Almeida C
AD  - Laboratory of Genetic Resources, Federal University of Alagoas, Arapiraca, AL, 
      Brazil.
FAU - Souza, Gustavo
AU  - Souza G
AD  - Laboratory of Plant Cytogenetics and Evolution, Department of Botany, Federal 
      University of Pernambuco, Recife, Brazil.
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PL  - England
TA  - Ann Bot
JT  - Annals of botany
JID - 0372347
RN  - 0 (DNA, Ribosomal)
SB  - IM
MH  - DNA, Ribosomal/analysis
MH  - Fabaceae/*genetics
MH  - Genetic Speciation
MH  - Genome, Plant/*genetics
MH  - In Situ Hybridization
MH  - In Situ Hybridization, Fluorescence
MH  - Sequence Analysis, DNA
MH  - *Tetraploidy
PMC - PMC6324754
EDAT- 2018/07/10 06:00
MHDA- 2019/10/11 06:00
PMCR- 2019/12/04
CRDT- 2018/07/09 06:00
PHST- 2018/04/10 00:00 [received]
PHST- 2018/06/28 00:00 [accepted]
PHST- 2018/07/10 06:00 [pubmed]
PHST- 2019/10/11 06:00 [medline]
PHST- 2018/07/09 06:00 [entrez]
PHST- 2019/12/04 00:00 [pmc-release]
AID - 5048901 [pii]
AID - mcy113 [pii]
AID - 10.1093/aob/mcy113 [doi]
PST - ppublish
SO  - Ann Bot. 2018 Dec 31;122(7):1143-1159. doi: 10.1093/aob/mcy113.