Capsella bursa-pastoris Medik. ve Capsella rubella Reuter taksonlarının (Brassicaceae) taksonomik, morfolojik ve musilaj özellikleri üzerine notlar

Cryptic species are morphologically similar species that tend to be recognised as a single taxon. The genus Capsella contains two cryptic species, C. bursa-pastoris and C. rubella, which are sympatrically distributed on the Iberian Peninsula, but only one of them (C. bursa-pastoris) has been recognised as an introduced species in South America. In continental Chile, two specimens of C. rubella were collected from two distant sites, but it is unclear whether this indicates only local presence or a wider distribution. After extensive sampling throughout continental Chile, we analysed the diversity of collected Capsella specimens using molecular markers. Our aim was to establish the presence of C. bursa-pastoris and/or C. rubella in continental Chile. To this end, we used an amplification refractory mutation system (ARMS) to detect the trnD–trnY fragment of cpDNA, which allowed the differential amplification of polymorphic sites for both species. A subsample of these amplification products (n = 8 fragments) was sequenced and compared with previously documented sequences for C. bursa-pastoris and C. rubella. Of 188 plants, 96.8% were identified as C. bursa-pastoris and 3.2% as C. rubella. C. bursa-pastoris was collected at all localities (28°34ʹS–53°09ʹS), whereas C. rubella was collected only in central-south Chile (34°59ʹS–41°28ʹS). This confirms that both C. bursa-pastoris and C. rubella are present in continental Chile, although they apparently exhibit different abundances and ranges. Our results suggest efforts to elucidate distribution of both Capsella species in South America.

Download Full-text

Genomic Identification of Founding Haplotypes Reveals the History of the Selfing Species Capsella rubella

PLoS Genetics ◽

10.1371/journal.pgen.1003754 ◽

2013 ◽

Vol 9 (9) ◽

pp. e1003754 ◽

Cited By ~ 67

Author(s):

Yaniv Brandvain ◽

Tanja Slotte ◽

Khaled M. Hazzouri ◽

Stephen I. Wright ◽

Graham Coop

Keyword(s):

Capsella Rubella ◽

History Of ◽

Selfing Species

Download Full-text

The Capsella rubella genome and the genomic consequences of rapid mating system evolution

Nature Genetics ◽

10.1038/ng.2669 ◽

2013 ◽

Vol 45 (7) ◽

pp. 831-835 ◽

Cited By ~ 240

Author(s):

Tanja Slotte ◽

Khaled M Hazzouri ◽

J Arvid Ågren ◽

Daniel Koenig ◽

Florian Maumus ◽

...

Keyword(s):

Mating System ◽

System Evolution ◽

Mating System Evolution ◽

Capsella Rubella

Download Full-text

Hybrid seed incompatibility in Capsella is connected to chromatin condensation defects in the endosperm

PLoS Genetics ◽

10.1371/journal.pgen.1009370 ◽

2021 ◽

Vol 17 (2) ◽

pp. e1009370

Author(s):

Katarzyna Dziasek ◽

Lauriane Simon ◽

Clément Lafon-Placette ◽

Benjamin Laenen ◽

Cecilia Wärdig ◽

...

Keyword(s):

Dna Methylation ◽

Chromatin Condensation ◽

Hybrid Seed ◽

Closely Related Species ◽

Single Chromosome ◽

Hybrid Incompatibility ◽

Molecular Events ◽

Interspecies Hybridization ◽

Capsella Rubella ◽

Related Plant

Hybridization of closely related plant species is frequently connected to endosperm arrest and seed failure, for reasons that remain to be identified. In this study, we investigated the molecular events accompanying seed failure in hybrids of the closely related species pair Capsella rubella and C. grandiflora. Mapping of QTL for the underlying cause of hybrid incompatibility in Capsella identified three QTL that were close to pericentromeric regions. We investigated whether there are specific changes in heterochromatin associated with interspecific hybridizations and found a strong reduction of chromatin condensation in the endosperm, connected with a strong loss of CHG and CHH methylation and random loss of a single chromosome. Consistent with reduced DNA methylation in the hybrid endosperm, we found a disproportionate deregulation of genes located close to pericentromeric regions, suggesting that reduced DNA methylation allows access of transcription factors to targets located in heterochromatic regions. Since the identified QTL were also associated with pericentromeric regions, we propose that relaxation of heterochromatin in response to interspecies hybridization exposes and activates loci leading to hybrid seed failure.

Download Full-text

Functional role of Polymerase IV during pollen development in Capsella

10.1101/863522 ◽

2019 ◽

Author(s):

Zhenxing Wang ◽

Nicolas Butel ◽

Juan Santos-González ◽

Filipe Borges ◽

Jun Yi ◽

...

Keyword(s):

Arabidopsis Thaliana ◽

Pollen Development ◽

Functional Role ◽

Small Interfering Rnas ◽

Guide Rna ◽

Pol Iv ◽

Capsella Rubella ◽

Rna Polymerase Iv ◽

Microspore Stage

AbstractIn Arabidopsis thaliana, the DNA-dependent RNA polymerase IV (Pol IV) is required for the formation of transposable element (TE)-derived small RNA (sRNA) transcripts. These transcripts are processed by DICER-LIKE 3 into 24-nt small interfering RNAs (siRNAs) that guide RNA-dependent DNA methylation. In the pollen grain, Pol IV is also required for the accumulation of 21/22-nt epigenetically-activated siRNAs (easiRNAs) that likely silence TEs by post-transcriptional mechanisms. Despite this proposed functional role, loss of Pol IV function in Arabidopsis does not cause a discernable pollen defect. Here, we show that loss of NRPD1, encoding the largest subunit of Pol IV in the Brassicaceae Capsella rubella, causes post-meiotic arrest of pollen development at the microspore stage. As in Arabidopsis, all TE-derived siRNAs were depleted in Capsella nrpd1 microspores. In wild-type background, we found that the same TEs produced 21/22-nt and 24-nt siRNAs, leading us to propose that Pol IV is generating the direct precursors for 21-24-nt siRNAs, which are targeted by different DICERs. Arrest of Capsella nrpd1 microspores was accompanied by deregulation of genes targeted by Pol IV-dependent siRNAs. The distance of TEs to genes was much closer in Capsella rubella compared to Arabidopsis thaliana, providing a possible explanation for the essential role of Pol IV for pollen development in Capsella. Our study in Capsella uncovers a functional requirement of Pol IV in microspores, emphasizing the relevance of investigating different plant models.One-sentence summaryLoss of Polymerase IV function in Capsella rubella causes microspore arrest, revealing an important functional role of Polymerase IV during pollen development.The author responsible for distribution of materials integral to the findings presented in this article in accordance with the policy described in the Instructions for Authors (www.plantcell.org) is: Claudia Kohler ([email protected])

Download Full-text

The role of transposable elements for gene expression in Capsella hybrids and allopolyploids

10.1101/044016 ◽

2016 ◽

Cited By ~ 2

Author(s):

Kim Steige ◽

Johan Reimegård ◽

Carolin A Rebernig ◽

Claudia Köhler ◽

Douglas G Scofield ◽

...

Keyword(s):

F1 Hybrids ◽

Regulatory Evolution ◽

Flower Buds ◽

Read Mapping ◽

Future Studies ◽

Capsella Rubella ◽

Expression Bias ◽

Affect Expression ◽

Close Relatives

The formation of an allopolyploid species involves the merger of two genomes with separate evolutionary histories. In allopolyploids, genes derived from one progenitor species are often expressed at higher levels than those from the other progenitor. It has been suggested that this could be due to differences in transposable element (TE) content among progenitors, as silencing of TEs can affect expression of nearby genes. Here, we examine the role of TEs for expression biases in the widespread allotetraploid Capsella bursa-pastoris and in diploid F1 hybrids generated by crossing Capsella orientalis and Capsella rubella, two close relatives of the progenitors of C. bursa-pastoris. As C. rubella harbors more TEs than C. orientalis, we expect C. orientalis alleles to be expressed at higher levels if TE content is key for expression biases. To test this hypothesis, we quantified expression biases at approximately 5800 genes in flower buds and leaves, while correcting for read mapping biases using genomic data. While three of four C. bursa-pastoris accessions exhibited a shift toward higher relative expression of C. orientalis alleles, the fourth C. bursa-pastoris accession had the opposite direction of expression bias, as did diploid F1 hybrids. Associations between TE polymorphism and expression bias were weak, and the effect of TEs on expression bias was small. These results suggest that differences in TE content alone cannot fully explain expression biases in these species. Future studies should investigate the role of differences in TE silencing efficacy, as well as a broader set of other factors. Our results are important for a more general understanding of the role of TEs for cis-regulatory evolution in plants.

Download Full-text

Faculty Opinions recommendation of Parallel Evolution of Common Allelic Variants Confers Flowering Diversity in Capsella rubella.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.733248611.793548880 ◽

2018 ◽

Author(s):

Renate Schmidt

Keyword(s):

Parallel Evolution ◽

Allelic Variants ◽

Capsella Rubella

Download Full-text

Kinetic and high-throughput profiling of epigenetic interactions by 3D-carbene chip-based surface plasmon resonance imaging technology

Proceedings of the National Academy of Sciences ◽

10.1073/pnas.1704155114 ◽

2017 ◽

Vol 114 (35) ◽

pp. E7245-E7254 ◽

Cited By ~ 23

Author(s):

Shuai Zhao ◽

Mo Yang ◽

Wenfei Zhou ◽

Baichao Zhang ◽

Zhiqiang Cheng ◽

...

Keyword(s):

Surface Plasmon Resonance ◽

Surface Plasmon ◽

High Throughput ◽

Plasmon Resonance ◽

Surface Plasmon Resonance Imaging ◽

Resonance Imaging ◽

Dna Mismatch ◽

Damage Repair ◽

Capsella Rubella ◽

Repair Protein

Chemical modifications on histones and DNA/RNA constitute a fundamental mechanism for epigenetic regulation. These modifications often function as docking marks to recruit or stabilize cognate “reader” proteins. So far, a platform for quantitative and high-throughput profiling of the epigenetic interactome is urgently needed but still lacking. Here, we report a 3D-carbene chip-based surface plasmon resonance imaging (SPRi) technology for this purpose. The 3D-carbene chip is suitable for immobilizing versatile biomolecules (e.g., peptides, antibody, DNA/RNA) and features low nonspecific binding, random yet function-retaining immobilization, and robustness for reuses. We systematically profiled binding kinetics of 1,000 histone “reader–mark” pairs on a single 3D-carbene chip and validated two recognition events by calorimetric and structural studies. Notably, a discovery on H3K4me3 recognition by the DNA mismatch repair protein MSH6 in Capsella rubella suggests a mechanism of H3K4me3-mediated DNA damage repair in plant.

Download Full-text