scholarly journals Chromosome-specific sequencing reveals an extensive dispensable genome component in wheat

2016 ◽  
Vol 6 (1) ◽  
Author(s):  
Miao Liu ◽  
Jiri Stiller ◽  
Kateřina Holušová ◽  
Jan Vrána ◽  
Dengcai Liu ◽  
...  
Keyword(s):  
Genome Component ◽  
Dispensable Genome

scholarly journals New insights into homoeologous copy number variations in the hexaploid wheat genome

2020 ◽  
Author(s):  
Caroline Juery ◽  
Lorenzo Concia ◽  
Romain De Oliveira ◽  
Nathan Papon ◽  
Ricardo Ramírez-González ◽  
...  
Keyword(s):  
Hexaploid Wheat ◽  
Core Genome ◽  
Diploid Species ◽  
Housekeeping Genes ◽  
Copy Number Variations ◽  
List Type ◽  
The Core ◽  
History Of ◽  
Function Expression ◽  
Dispensable Genome

AbstractBread wheat is an allohexaploid species originating from two successive and recent rounds of hybridization between three diploid species that were very similar in terms of chromosome number, genome size, TE content, gene content and synteny. As a result, it has long been considered that most of the genes were in three pairs of homoeologous copies. However, these so-called triads represent only one half of wheat genes, while the remaining half belong to homoeologous groups with various number of copies across subgenomes. In this study, we examined and compared the distribution, conservation, function, expression and epigenetic profiles of triads with homoeologous groups having undergone a deletion (dyads) or a duplication (tetrads) in one subgenome. We show that dyads and tetrads are mostly located in distal regions and have lower expression level and breadth than triads. Moreover, they are enriched in functions related to adaptation and more associated with the repressive H3K27me3 modification. Altogether, these results suggest that triads mainly correspond to housekeeping genes and are part of the core genome, while dyads and tetrads belong to the Triticeae dispensable genome. In addition, by comparing the different categories of dyads and tetrads, we hypothesize that, unlike most of the allopolyploid species, subgenome dominance and biased fractionation are absent in hexaploid wheat. Differences observed between the three subgenomes are more likely related to two successive and ongoing waves of post-polyploid diploidization, that had impacted A and B more significantly than D, as a result of the evolutionary history of hexaploid wheat.Core ideasOnly one half of hexaploid wheat genes are in triads, i.e. in a 1:1:1 ratio across subgenomesTriads are likely part of the core genome; dyads and tetrads belong to the dispensable genomeSubgenome dominance and biased fractionation are absent in hexaploid wheatSubgenome differences are related to two successive waves of post-polyploid diploidization

scholarly journals STABILITY IN DNA CONTENT OF AB GENOME COMPONENT OF COMMON WHEAT DURING THE PAST SEVEN THOUSAND YEARS

1974 ◽  
Vol 49 (4) ◽  
pp. 179-187 ◽  
Author(s):  
YOSHIHIKO FURUTA ◽  
KOZO NISHIKAWA ◽  
TOSHIAKI TANINO
Keyword(s):  
Common Wheat ◽  
Dna Content ◽  
Genome Component ◽  
The Past

Lessons from a small, dispensable genome: The mitochondrial genome of yeast

Gene ◽  
2005 ◽  
Vol 354 ◽  
pp. 189-200 ◽  
Author(s):  
Giorgio Bernardi
Keyword(s):  
Mitochondrial Genome ◽  
Dispensable Genome

scholarly journals DNA sequences essential for replication of the B genome component of tomato golden mosaic virus.

1989 ◽  
Vol 1 (10) ◽  
pp. 985-992 ◽  
Author(s):  
G N Revington ◽  
G Sunter ◽  
D M Bisaro
Keyword(s):  
Mosaic Virus ◽  
Dna Sequences ◽  
Tomato Golden Mosaic Virus ◽  
Genome Component ◽  
B Genome

Next-generation sequencing reveals differentially amplified tandem repeats as a major genome component of Northern Europe’s oldest Camellia japonica

2015 ◽  
Vol 23 (4) ◽  
pp. 791-806 ◽  
Author(s):  
Tony Heitkam ◽  
Stefan Petrasch ◽  
Falk Zakrzewski ◽  
Anja Kögler ◽  
Torsten Wenke ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Tandem Repeats ◽  
Next Generation ◽  
Camellia Japonica ◽  
Genome Component ◽  
Major Genome ◽  
Generation Sequencing

scholarly journals Harvesting rice’s dispensable genome

2015 ◽  
Vol 16 (1) ◽  
Author(s):  
Rod A. Wing
Keyword(s):  
Dispensable Genome

Transcription map of the B genome component of tomato golden mosaic virus and comparison with A component transcripts

Virology ◽  
1989 ◽  
Vol 173 (2) ◽  
pp. 647-655 ◽  
Author(s):  
Garry Sunter ◽  
David M. Bisaro
Keyword(s):  
Mosaic Virus ◽  
Tomato Golden Mosaic Virus ◽  
Genome Component ◽  
B Genome ◽  
Transcription Map

scholarly journals Genome Reduction Uncovers a Large Dispensable Genome and Adaptive Role for Copy Number Variation in Asexually Propagated Solanum tuberosum

2016 ◽  
Vol 28 (2) ◽  
pp. 388-405 ◽  
Author(s):  
Michael A. Hardigan ◽  
Emily Crisovan ◽  
John P. Hamilton ◽  
Jeongwoon Kim ◽  
Parker Laimbeer ◽  
...  
Keyword(s):  
Solanum Tuberosum ◽  
Copy Number Variation ◽  
Copy Number ◽  
Genome Reduction ◽  
Number Variation ◽  
Dispensable Genome ◽  
Adaptive Role

DNA Sequences Essential for Replication of the B Genome Component of Tomato Golden Mosaic Virus

1989 ◽  
Vol 1 (10) ◽  
pp. 985 ◽  
Author(s):  
Gwen N. Revington ◽  
Garry Sunter ◽  
David M. Bisaro
Keyword(s):  
Mosaic Virus ◽  
Dna Sequences ◽  
Tomato Golden Mosaic Virus ◽  
Genome Component ◽  
B Genome
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