The study presents the chromosome-level genome assembly of Avena longiglumis, a diploid oat species. The assembly is high-quality, with 99% completeness and 40,845 annotated protein-coding genes. It provides insights into genome evolution, expansion, and structural variations, offering valuable information for oat breeding and functional genomics. Additionally, mitochondrial genome and comparative studies have been conducted.
Tag: evolution
Towards a banana pangenome: a new chromosome assembly in Musaceae
Our fascinating research on the diversity of genomes within the banana family in The genome assembly of Musa beccarii & evolution of banana family genomes: extensive chromosomal rearrangements & genome expansion by Zheng-Feng Wang, Mathieu Rouard @m_rouard, Gaetan Droc @GaetanDroc, Pat (J S) Heslop-Harrison @Pathh1, Xue-Jun Ge. GigaScience, Volume 12, 2023, giad005, https://doi.org/10.1093/gigascience/giad005 @Gigascience 🍌🧬#GenomeAssembly…
Chromosomal landscapes of Endogenous Retroviruses (ERVs) integrated in the sheep nuclear genome
Sarbast Ihsan Mustafa, Trude Schwarzacher and John S. Heslop-Harrison The Nature and Chromosomal Landscape of Endogenous Retroviruses (ERVs) Integrated in the Sheep Nuclear Genome. DNA 2022, 2(1), 86-103; Free full text: https://doi.org/10.3390/dna2010007 Endogenous retroviruses (ERVs) represent genomic components of retroviral origin that are found integrated in the genomes of various species of vertebrates. These genomic…
Conservation, divergence and functions of centromeric satellite DNA families in the Bovidae
350. Escudeiro A, Adega F, Robinson TJ, Heslop-Harrison JS, Chaves R. 2019. Conservation, divergence, and functions of centromeric satellite DNA families in the Bovidae. Genome Biology and Evolution 11(4):1152–1165. doi:10.1093/gbe/evz061 https://doi.org/10.1093/gbe/evz061 (Open access) Repetitive satellite DNA (satDNA) sequences are abundant in eukaryote genomes, with a structural and functional role in centromeric function. We analysed the nucleotide…
Bovine satellite DNAs and a history of the evolution of complexity and its impact in the Bovidae family
348. Escudeiro A, Ferreira D, Mendes-da-Silva A, Heslop-Harrison JS, Adega F, Chaves R. 2019. Bovine satellite DNAs–a history of the evolution of complexity and its impact in the Bovidae family. European Zoological Journal. 2019 Jan 1 86(1):20-37. https://doi.org/10.1080/24750263.2018.1558294 (Open access) Despite the many questions regarding satellite DNA sequences and their cellular roles, the evolutionary history of…
Complete mitogenomes from Kurdistani sheep – abundant centromeric nuclear copies representing diverse ancestors
341. Mustafa SI, Schwarzacher T, and Heslop-Harrison JS. 2018. Complete mitogenomes from Kurdistani sheep: abundant centromeric nuclear copies representing diverse ancestors. Mitochondrial DNA Part A https://doi.org/10.1080/24701394.2018.1431226 (publisher – see free publisher link below if you can’t access) AND Mustafa et al_2018 AuthorVersion The geographical center of domestication and species diversity for sheep (Ovis aries) lies around the…
Repetitive DNA in the catfish genome- rDNA, microsatellites, and Tc1-mariner transposon sequences in Imparfinis
339. Gouveia JG, Wolf IR, Vilas-Boas LA, Heslop-Harrison JS, Schwarzacher T, Dias AL. 2017. Repetitive DNA in the catfish genome: rDNA, microsatellites, and Tc1-mariner transposon sequences in Imparfinis species (Siluriformes, Heptapteridae). Journal of Heredity 108(6): 650-657. Journal link: https://doi.org/10.1093/jhered/esx065 Author PHHGouveia_CatfishRepeatsAuthorVersion Physical mapping of repetitive DNA families in the karyotypes of fish is important to understand the organization and evolution…
Polyploidy and interspecific hybridisation: partners for adaptation, speciation and evolution in plants
337. Alix K, GĂ©rard PR, Schwarzacher T, Heslop-Harrison JS. 2017. Polyploidy and interspecific hybridisation: partners for adaptation, speciation and evolution in plants. Annals of Botany 120(2): 183-194. https://doi.org/10.1093/aob/mcx079  (Free access). Polyploidy, defined as whole genome duplication, is present in almost all lineages of higher plants, with multiple rounds of polyploidy occurring in most extant species. This Annals…
Domestication, polyploidy and genomics of crops and weeds PAGXXV
Plant and Animal Genome Conference in San Diego #PAGXXV each January is the chance to join 3500 people working in genomics. I presented a talk on the molecular cytogenetics group’s work, starting with consideration of early stages of crop domestication, and then thinking about how we can make agriculture more sustainable. I also considered weeds,…
Molecular Cytogenetics Group – an infographic of what we do
Infographic: what we do in the Molecular Cytogenetics Research Group
Introgression of chromosome segments from multiple alien species in wheat breeding lines with wheat streak mosaic virus resistance
324. Ali N, Heslop-Harrison JS, Ahmad H, Graybosch RA, Hein GL, Schwarzacher T. 2016. Introgression of chromosome segments from multiple alien species in wheat breeding lines with wheat streak mosaic virus resistance. Heredity (2016) 117, 114–123; published online 1 June 2016 doi:10.1038/hdy.2016.36 Author version: N_Ali_et al 2016 Multiple Alien Introgressions in Wheat Publisher site: http://www.nature.com/hdy/journal/vaop/ncurrent/pdf/hdy201636a.pdf Pyramiding of…
Analysis of Petunia vein clearing virus (PVCV) sequences, retroelements and tandem repeats in Petunia axillaris N and P. inflata S6
325a. Schwarzacher T, Heslop-Harrison JS, Richert-Pöggeler KR. 2016. Analysis of Petunia vein clearing virus (PVCV) sequences, retroelements and tandem repeats in Petunia axillaris N and P. inflata S6. Supplementary manuscript 2. Nature Plants 2: article number 16074. Link to manuscript: Petunia_PVCV_Repeats_SchwarzacherEtAl2016 Within the genome sequence assemblies of P. axillaris (PaxiN) and P. inflata (PinfS6) and unassembled reads, we…
Preparation and fluorescent analysis of plant metaphase chromosomes
TS. Schwarzacher T. 2016. Preparation and fluorescent analysis of plant metaphase chromosomes. Chapter 7. In: Plant Cell Division: Methods and Protocols, ed Caillaud M-C; Methods in Molecular Biology 1370: 87-103. doi: 10.1007/978-1-4939-3142-2_7. Humana Press, Springer, New York. Local Copy: Chromosome Preparation. Trude Schwarzacher. http://www.molcyt.com Good preparations are essential for informative analysis of both somatic and…
The diversification and activity of hAT transposons in Musa genomes
Menzel G, Heitkam T, Seibt KM, Nouroz F, MĂĽller-Stoerme M, Heslop-Harrison JS, Schmidt T. 2014. The diversification and activity of hAT transposons in Musa genomes. Chromosome Research 22: 559–571. DOI 10.1007/s10577-014-9445-5 and Pubmed link ID: 25377178 And author print hATs in Musa _2014_CR_MenzelEtAlAuthorVersion2014. Sequencing of plant genomes often identified the hAT superfamily as largest group of DNA…
Evidence of convergent evolution in humans and macaques supports an adaptive role for copy number variation of the β-defensin-2 gene
Ottolini B, Hornsby MJ, Abujaber R, Macarthur JA, Badge RM, Schwarzacher T, Albertson DG, Bevins CL, Solnick JV, Hollox EJ. 2014. Evidence of convergent evolution in humans and macaques supports an adaptive role for copy number variation of the β-defensin-2 gene. Genome Biology and Evolution 6(11): 3025-3038. DOI: 10.1093/gbe/evu236 β-defensins are a family of important peptides of…
Molecular cytogenetics, genome evolution and agricultural genomics 