scholarly journals Floral Reversion in Arabidopsis suecica Is Correlated with the Onset of Flowering and Meristem Transitioning

PLoS ONE ◽  
2015 ◽  
Vol 10 (5) ◽  
pp. e0127897 ◽  
Author(s):  
Amelia Asbe ◽  
Starr C. Matsushita ◽  
Spencer Gordon ◽  
H. E. Kirkpatrick ◽  
Andreas Madlung
Keyword(s):  
Arabidopsis Suecica

scholarly journals Concerted genomic and epigenomic changes accompany stabilization of Arabidopsis allopolyploids

2021 ◽  
Vol 5 (10) ◽  
pp. 1382-1393
Author(s):  
Xinyu Jiang ◽  
Qingxin Song ◽  
Wenxue Ye ◽  
Z. Jeffrey Chen
Keyword(s):  
Gene Expression ◽  
Dna Methylation ◽  
Small Rnas ◽  
Structural Variation ◽  
Self Incompatibility ◽  
Polyploid Evolution ◽  
Genomic Variations ◽  
Conserved Gene ◽  
Arabidopsis Suecica ◽  
Affect Gene Expression

AbstractDuring evolution successful allopolyploids must overcome ‘genome shock’ between hybridizing species but the underlying process remains elusive. Here, we report concerted genomic and epigenomic changes in resynthesized and natural Arabidopsis suecica (TTAA) allotetraploids derived from Arabidopsisthaliana (TT) and Arabidopsisarenosa (AA). A. suecica shows conserved gene synteny and content with more gene family gain and loss in the A and T subgenomes than respective progenitors, although A. arenosa-derived subgenome has more structural variation and transposon distributions than A. thaliana-derived subgenome. These balanced genomic variations are accompanied by pervasive convergent and concerted changes in DNA methylation and gene expression among allotetraploids. The A subgenome is hypomethylated rapidly from F1 to resynthesized allotetraploids and convergently to the T-subgenome level in natural A. suecica, despite many other methylated loci being inherited from F1 to all allotetraploids. These changes in DNA methylation, including small RNAs, in allotetraploids may affect gene expression and phenotypic variation, including flowering, silencing of self-incompatibility and upregulation of meiosis- and mitosis-related genes. In conclusion, concerted genomic and epigenomic changes may improve stability and adaptation during polyploid evolution.

scholarly journals Homoeologous exchanges occur through intragenic recombination generating novel transcripts and proteins in wheat and other polyploids

2020 ◽  
pp. 202003505 ◽  
Author(s):  
Zhibin Zhang ◽  
Xiaowan Gou ◽  
Hongwei Xun ◽  
Yao Bian ◽  
Xintong Ma ◽  
...  
Keyword(s):  
Homologous Recombination ◽  
Molecular Mechanisms ◽  
Genome Structure ◽  
Whole Genome Sequence ◽  
Intragenic Recombination ◽  
Protein Fusion ◽  
Coding Regions ◽  
Recombination Hotspots ◽  
Widespread Phenomenon ◽  
Arabidopsis Suecica

Recombination between homeologous chromosomes, also known as homeologous exchange (HE), plays a significant role in shaping genome structure and gene expression in interspecific hybrids and allopolyploids of several plant species. However, the molecular mechanisms that govern HEs are not well understood. Here, we studied HE events in the progeny of a nascent allotetraploid (genome AADD) derived from two diploid progenitors of hexaploid bread wheat using cytological and whole-genome sequence analyses. In total, 37 HEs were identified and HE junctions were mapped precisely. HEs exhibit typical patterns of homologous recombination hotspots, being biased toward low-copy, subtelomeric regions of chromosome arms and showing association with known recombination hotspot motifs. But, strikingly, while homologous recombination preferentially takes place upstream and downstream of coding regions, HEs are highly enriched within gene bodies, giving rise to novel recombinant transcripts, which in turn are predicted to generate new protein fusion variants. To test whether this is a widespread phenomenon, a dataset of high-resolution HE junctions was analyzed for allopolyploid Brassica, rice, Arabidopsis suecica, banana, and peanut. Intragenic recombination and formation of chimeric genes was detected in HEs of all species and was prominent in most of them. HE thus provides a mechanism for evolutionary novelty in transcript and protein sequences in nascent allopolyploids.

Natural variation and persistent developmental instabilities in geographically diverse accessions of the allopolyploid Arabidopsis suecica

2011 ◽  
Vol 144 (2) ◽  
pp. 123-133 ◽  
Author(s):  
Andreas Madlung ◽  
Natalie Henkhaus ◽  
Leigh Jurevic ◽  
Emanual A. Kahsai ◽  
James Bernhard
Keyword(s):  
Natural Variation ◽  
Arabidopsis Suecica

Genomic in situ hybridization in plants with small genomes is feasible and elucidates the chromosomal parentage in interspecific Arabidopsis hybrids

Genome ◽  
2004 ◽  
Vol 47 (5) ◽  
pp. 954-960 ◽  
Author(s):  
Hoda B.M Ali ◽  
Martin A Lysak ◽  
Ingo Schubert
Keyword(s):  
In Situ Hybridization ◽  
Genomic In Situ Hybridization ◽  
Closely Related Species ◽  
Meiotic Chromosomes ◽  
Hybrid Plants ◽  
Synthetic Hybrids ◽  
High Concentrations ◽  
Arabidopsis Suecica ◽  
Allotetraploid Species

Genomic in situ hybridization (GISH) is a useful tool to analyse natural polyploids, hybrid plants, and their backcross progenies as to their origin, genomic composition, and intergenomic rearrangements. However, in angiosperms with very small genomes (<0.6 pg/1 C), often only heterochromatic regions were found to be labeled. We have modified the GISH technique to label entire mitotic and meiotic chromosomes of Arabidopsis thaliana (2n = 10) and closely related species with very small genomes by using high concentrations of DNA (7.5–15 µg per probe per slide) or 5 µg of probe and long hybridization times (>60 h). According to our GISH data, Cardaminopsis carpatica (2n = 16) is most likely the diploid ancestor of the autotetraploid Arabidopsis arenosa (2n = 32). Furthermore, within the allotetraploid species Arabidopsis suecica (2n = 26), it was possible to elucidate the origin of chromosomes contributed by the parental species A. thaliana and A. arenosa for a specimen with 2n = 26 or a deviating chromosome number.Key words: genomic in situ hybridization (GISH), Arabidopsis, Brassicaceae, allopolyploids, synthetic hybrids.

scholarly journals Mode of reproduction in Arabidopsis suecica

Hereditas ◽  
2005 ◽  
Vol 141 (3) ◽  
pp. 313-317 ◽  
Author(s):  
TORBJÖRN SÄLL ◽  
CHRISTINA LIND-HALLDÉN ◽  
MATTIAS JAKOBSSON ◽  
CHRISTER HALLDÉN
Keyword(s):  
Mode Of Reproduction ◽  
Arabidopsis Suecica

scholarly journals Environmental Regulation of Heterosis in the Allopolyploid Arabidopsis suecica

2016 ◽  
Vol 170 (4) ◽  
pp. 2251-2263 ◽  
Author(s):  
Erik M. Solhaug ◽  
Jacie Ihinger ◽  
Maria Jost ◽  
Veronica Gamboa ◽  
Blaine Marchant ◽  
...  
Keyword(s):  
Environmental Regulation ◽  
Arabidopsis Suecica

scholarly journals Natural variation in stress response gene activity in the allopolyploid Arabidopsis suecica

BMC Genomics ◽  
2017 ◽  
Vol 18 (1) ◽  
Author(s):  
Keisha D. Carlson ◽  
Noe Fernandez-Pozo ◽  
Aureliano Bombarely ◽  
Rahul Pisupati ◽  
Lukas A. Mueller ◽  
...  
Keyword(s):  
Stress Response ◽  
Natural Variation ◽  
Gene Activity ◽  
Response Gene ◽  
Arabidopsis Suecica ◽  
Stress Response Gene

scholarly journals Genome sequencing reveals the origin of the allotetraploid Arabidopsis suecica

2017 ◽  
pp. msw299 ◽  
Author(s):  
Polina Yu. Novikova ◽  
Takashi Tsuchimatsu ◽  
Samson Simon ◽  
Viktoria Nizhynska ◽  
Viktor Voronin ◽  
...  
Keyword(s):  
Genome Sequencing ◽  
Arabidopsis Suecica
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