keyword
https://read.qxmd.com/read/38531629/whole-genome-sequencing-of-allotetraploid-bermudagrass-reveals-the-origin-of-cynodon-and-candidate-genes-for-salt-tolerance
#1
JOURNAL ARTICLE
Huan Wang, Tilin Fang, Xiaoning Li, Yan Xie, Wei Wang, Tao Hu, David Kudrna, Erick Amombo, Yanling Yin, Shugao Fan, Zhiyun Gong, Yicheng Huang, Chunjiao Xia, Jianwei Zhang, Yanqi Wu, Jinmin Fu
Bermudagrass (Cynodon dactylon) is a globally distributed, extensively used warm-season turf and forage grass with high tolerance to salinity and drought stress in alkaline environments. However, the origin of the species and genetic mechanisms for salinity tolerance in the species are basically unknown. Accordingly, we set out to study evolution divergence events in the Cynodon genome and to identify genes for salinity tolerance. We developed a 604.0 Mb chromosome-level polyploid genome sequence for bermudagrass 'A12359' (n = 18)...
March 26, 2024: Plant Journal
https://read.qxmd.com/read/38529065/seed-shape-and-size-of-silene-latifolia-differences-between-sexes-and-influence-of-the-parental-genome-in-hybrids-with-silene-dioica
#2
JOURNAL ARTICLE
Hubinský Marcel, Martín-Gómez José Javier, Cervantes Emilio, Hobza Roman, Rodríguez Lorenzo Jose Luis
INTRODUCTION: Plants undergo various natural changes that dramatically modify their genomes. One is polyploidization and the second is hybridization. Both are regarded as key factors in plant evolution and result in phenotypic differences in different plant organs. In Silene , we can find both examples in nature, and this genus has a seed shape diversity that has long been recognized as a valuable source of information for infrageneric classification. METHODS: Morphometric analysis is a statistical study of shape and size and their covariations with other variables...
2024: Frontiers in Plant Science
https://read.qxmd.com/read/38525152/the-effect-of-marker-types-and-density-on-genomic-prediction-and-gwas-of-key-performance-traits-in-tetraploid-potato
#3
JOURNAL ARTICLE
Trine Aalborg, Elsa Sverrisdóttir, Heidi Thorgaard Kristensen, Kåre Lehmann Nielsen
Genomic prediction and genome-wide association studies are becoming widely employed in potato key performance trait QTL identifications and to support potato breeding using genomic selection. Elite cultivars are tetraploid and highly heterozygous but also share many common ancestors and generation-spanning inbreeding events, resulting from the clonal propagation of potatoes through seed potatoes. Consequentially, many SNP markers are not in a 1:1 relationship with a single allele variant but shared over several alleles that might exert varying effects on a given trait...
2024: Frontiers in Plant Science
https://read.qxmd.com/read/38517199/polyploid-goldback-and-silverback-ferns-pentagramma-occupy-a-wider-colder-and-wetter-bioclimatic-niche-than-diploid-counterparts
#4
JOURNAL ARTICLE
Keir M Wefferling, Mariana Castro, Sílvia Castro, Helen Holmlund, João Loureiro, Carl J Rothfels, Eric Schuettpelz
PREMISE: The western North American fern genus Pentagramma (Pteridaceae) is characterized by complex patterns of ploidy variation, an understanding of which is critical to comprehending both the evolutionary processes within the genus and its current diversity. METHODS: We undertook a cytogeographic study across the range of the genus, using a combination of chromosome counts and flow cytometry to infer ploidy level. Bioclimatic variables and elevation were used to compare niches...
March 22, 2024: American Journal of Botany
https://read.qxmd.com/read/38507615/more-floret1-controls-anther-development-by-negatively-regulating-key-tapetal-genes-in-both-diploid-and-tetraploid-rice
#5
JOURNAL ARTICLE
Zijun Lu, Lianjun Zhu, Guobin Liang, Xiaoxia Li, Qihang Li, Yajing Li, Shengbo He, Jinwen Wu, Xiangdong Liu, Jingyi Zhang
Polyploid hybrid rice (Oryza sativa) has great potential for increasing yields. However, hybrid rice depends on male fertility and its regulation, which is less well studied in polyploid rice than in diploid rice. We previously identified a MYB transcription factor, MORE FLORET1 (MOF1), whose mutation causes male sterility in neo-tetraploid rice. MOF1 expression in anthers peaks at anther Stage 7 (S7) and progressively decreases to low levels at S10. However, it remains unclear how the dynamics of MOF1 expression contribute to male fertility...
March 20, 2024: Plant Physiology
https://read.qxmd.com/read/38504900/mutating-alfalfa-coumarate-3-hydroxylase-using-multiplex-crispr-cas9-leads-to-reduced-lignin-deposition-and-improved-forage-quality
#6
JOURNAL ARTICLE
Tezera W Wolabu, Kashif Mahmood, Fang Chen, Ivone Torres-Jerez, Michael Udvardi, Million Tadege, Lili Cong, Zengyu Wang, Jiangqi Wen
Alfalfa ( Medicago sativa L.) forage quality is adversely affected by lignin deposition in cell walls at advanced maturity stages. Reducing lignin content through RNA interference or antisense approaches has been shown to improve alfalfa forage quality and digestibility. We employed a multiplex CRISPR/Cas9-mediated gene-editing system to reduce lignin content and alter lignin composition in alfalfa by targeting the COUMARATE 3-HYDROXYLASE (MsC3H) gene, which encodes a key enzyme in lignin biosynthesis. Four guide RNAs (gRNAs) targeting the first exon of MsC3H were designed and clustered into a tRNA-gRNA polycistronic system and introduced into tetraploid alfalfa via Agrobacterium -mediated transformation...
2024: Frontiers in Plant Science
https://read.qxmd.com/read/38491323/genome-assemblies-of-11-bamboo-species-highlight-diversification-induced-by-dynamic-subgenome-dominance
#7
JOURNAL ARTICLE
Peng-Fei Ma, Yun-Long Liu, Cen Guo, Guihua Jin, Zhen-Hua Guo, Ling Mao, Yi-Zhou Yang, Liang-Zhong Niu, Yu-Jiao Wang, Lynn G Clark, Elizabeth A Kellogg, Zu-Chang Xu, Xia-Ying Ye, Jing-Xia Liu, Meng-Yuan Zhou, Yan Luo, Yang Yang, Douglas E Soltis, Jeffrey L Bennetzen, Pamela S Soltis, De-Zhu Li
Polyploidy (genome duplication) is a pivotal force in evolution. However, the interactions between parental genomes in a polyploid nucleus, frequently involving subgenome dominance, are poorly understood. Here we showcase analyses of a bamboo system (Poaceae: Bambusoideae) comprising a series of lineages from diploid (herbaceous) to tetraploid and hexaploid (woody), with 11 chromosome-level de novo genome assemblies and 476 transcriptome samples. We find that woody bamboo subgenomes exhibit stunning karyotype stability, with parallel subgenome dominance in the two tetraploid clades and a gradual shift of dominance in the hexaploid clade...
March 15, 2024: Nature Genetics
https://read.qxmd.com/read/38486346/a-reference-genome-of-commelinales-provides-insights-into-the-commelinids-evolution-and-global-spread-of-water-hyacinth-pontederia-crassipes
#8
JOURNAL ARTICLE
Yujie Huang, Longbiao Guo, Lingjuan Xie, Nianmin Shang, Dongya Wu, Chuyu Ye, Eduardo Carlos Rudell, Kazunori Okada, Qian-Hao Zhu, Beng-Kah Song, Daguang Cai, Aldo Merotto Junior, Lianyang Bai, Longjiang Fan
Commelinales belongs to the commelinids clade, which also comprises Poales that includes the most important monocot species, such as rice, wheat, and maize. No reference genome of Commelinales is currently available. Water hyacinth (Pontederia crassipes or Eichhornia crassipes), a member of Commelinales, is one of the devastating aquatic weeds, although it is also grown as an ornamental and medical plant. Here, we present a chromosome-scale reference genome of the tetraploid water hyacinth with a total length of 1...
January 2, 2024: GigaScience
https://read.qxmd.com/read/38475588/characterization-among-and-within-sicilian-tetraploid-wheat-landraces-by-gluten-protein-analysis-for-traceability-purposes
#9
JOURNAL ARTICLE
Samuela Palombieri, Marco Bonarrigo, Silvia Potestio, Francesco Sestili, Bernardo Messina, Giuseppe Russo, Claudia Miceli, Benedetto Frangipane, Marco Genduso, Chiara Delogu, Lorella Andreani, Stefania Masci
The criteria of "Distinctness, Uniformity and Stability" as well as a high "overall quality index" are used to register the Italian modern varieties to the national register. Differently, local conservation varieties can be certified under different EU Directives that facilitate, as an overall objective, the preservation of biodiversity and the containment of genetic erosion. In recent years, products derived from ancient grains are perceived to be healthier and more sustainable by consumers, especially in Italy, with consequent higher market prices...
March 6, 2024: Plants (Basel, Switzerland)
https://read.qxmd.com/read/38475481/genome-size-in-the-arenaria-ciliata-species-complex-caryophyllaceae-with-special-focus-on-northern-europe-and-the-arctic
#10
JOURNAL ARTICLE
Gregor Kozlowski, Yann Fragnière, Benoît Clément, Olivier Gilg, Benoît Sittler, Johannes Lang, Pernille Bronken Eidesen, Simone I Lang, Pawel Wasowicz, Conor Meade
The main aim of the present study has been the completion of genome size data for the diverse arctic-alpine A. ciliata species complex, with special focus on the unexplored arctic taxon A. pseudofrigida , the north-European A. norvegica, and A. gothica from Gotland (Sweden). Altogether, 46 individuals of these three Nordic taxa have been sampled from seven different regions and their genome size estimated using flow cytometry. Three other alpine taxa in the A. ciliata complex ( A. multicaulis , A. ciliata subsp...
February 26, 2024: Plants (Basel, Switzerland)
https://read.qxmd.com/read/38472439/a-genome-wide-association-study-for-resistance-to-fusarium-wilt-fusarium-oxysporum-f-sp-vasinfectum-race-4-in-diploid-cotton-gossypium-arboreum-%C3%A2-and-resistance-transfer-to-tetraploid-gossypium-hirsutum
#11
JOURNAL ARTICLE
Abdelraheem Abdelraheem, Yi Zhu, Linghe Zeng, Salliana Stetina, Jinfa Zhang
Fusarium wilt, caused by the soilborne fungus Fusarium oxysporum f. sp. vasinfectum (FOV), is a devastating disease affecting cotton (Gossypium spp.) worldwide. Understanding the genetic basis of resistance in diploid cotton and successfully transferring the resistance to tetraploid Upland cotton (G. hirsutum) are crucial for developing resistant cotton cultivars. Although numerous studies have been conducted to investigate the genetic basis of Fusarium wilt in tetraploid cotton, little research has been conducted on diploid species...
March 13, 2024: Molecular Genetics and Genomics: MGG
https://read.qxmd.com/read/38472376/identification-of-two-mutant-jason-related-genes-associated-with-unreduced-pollen-production-in-potato
#12
JOURNAL ARTICLE
Corentin R Clot, Lea Vexler, Maria de La O Leyva-Perez, Peter M Bourke, Christel J M Engelen, Ronald C B Hutten, José van de Belt, Erik Wijnker, Dan Milbourne, Richard G F Visser, Martina Juranić, Herman J van Eck
Multiple QTLs control unreduced pollen production in potato. Two major-effect QTLs co-locate with mutant alleles of genes with homology to AtJAS, a known regulator of meiotic spindle orientation. In diploid potato the production of unreduced gametes with a diploid (2n) rather than a haploid (n) number of chromosomes has been widely reported. Besides their evolutionary important role in sexual polyploidisation, unreduced gametes also have a practical value for potato breeding as a bridge between diploid and tetraploid germplasm...
March 12, 2024: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://read.qxmd.com/read/38469380/efficient-targeted-mutagenesis-in-tetraploid-pogostemon-cablin-by-the-crispr-cas9-mediated-genomic-editing-system
#13
JOURNAL ARTICLE
Shiqiang Xu, Fangping Li, Fang Zhou, Jingyu Li, Shike Cai, Shaohai Yang, Jihua Wang
No abstract text is available yet for this article.
March 2024: Horticulture Research
https://read.qxmd.com/read/38460553/partially-knocking-out-ntpdk1a-1b-1c-1d-simultaneously-in-nicotiana-tabacum-using-crispr-cas9-technology-results-in-auxin-related-developmental-defects
#14
JOURNAL ARTICLE
Qian-Wei Ren, Tian-Yao Liu, Hu-Jiao Lan, Zhen-Chao Li, Min-Jun Huang, Ya-Ting Zhao, Yu Chen, Li-Na Liao, Xiao-Han Ma, Jian-Zhong Liu
The eukaryotic AGC protein kinase subfamily (protein kinase A/ protein kinase G/ protein kinase C-family) is involved in regulating numerous biological processes across kingdoms, including growth and development, and apoptosis. PDK1(3-phosphoinositide-dependent protein kinase 1) is a conserved serine/threonine kinase in eukaryotes, which is both a member of AGC kinase and a major regulator of many other downstream AGC protein kinase family members. Although extensively investigated in model plant Arabidopsis, detailed reports for tobacco PDK1s have been limited...
March 7, 2024: Plant Science: An International Journal of Experimental Plant Biology
https://read.qxmd.com/read/38454146/synthetic-polyploidization-induces-enhanced-phytochemical-profile-and-biological-activities-in-thymus-vulgaris-l-essential-oil
#15
JOURNAL ARTICLE
Neha Gupta, Soham Bhattacharya, Adrish Dutta, Jan Tauchen, Přemysl Landa, Klára Urbanová, Markéta Houdková, Eloy Fernández-Cusimamani, Olga Leuner
Essential oil from Thymus vulgaris L. has valuable therapeutic potential that is highly desired in pharmaceutical, food, and cosmetic industries. Considering these advantages and the rising market demand, induced polyploids were obtained using oryzalin to enhance essential oil yield. However, their therapeutic values were unexplored. So, this study aims to assess the phytochemical content, and antimicrobial, antioxidant, and anti-inflammatory activities of tetraploid and diploid thyme essential oils. Induced tetraploids had 41...
March 7, 2024: Scientific Reports
https://read.qxmd.com/read/38451354/a-new-winter-wheat-genetic-resource-harbors-untapped-diversity-from-synthetic-hexaploid-wheat
#16
JOURNAL ARTICLE
Tally I C Wright, Richard Horsnell, Bethany Love, Amanda J Burridge, Keith A Gardner, Robert Jackson, Fiona J Leigh, Aleksander Ligeza, Sigrid Heuer, Alison R Bentley, Philip Howell
The NIAB_WW_SHW_NAM population, a large nested association mapping panel, is a useful resource for mapping QTL from synthetic hexaploid wheat that can improve modern elite wheat cultivars. The allelic richness harbored in progenitors of hexaploid bread wheat (Triticum aestivum L.) is a useful resource for addressing the genetic diversity bottleneck in modern cultivars. Synthetic hexaploid wheat (SHW) is created through resynthesis of the hybridisation events between the tetraploid (Triticum turgidum subsp. durum Desf...
March 7, 2024: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://read.qxmd.com/read/38446220/using-drone-retrieved-multispectral-data-for-phenomic-selection-in-potato-breeding
#17
JOURNAL ARTICLE
Alessio Maggiorelli, Nadia Baig, Vanessa Prigge, Julien Bruckmüller, Benjamin Stich
Predictive breeding approaches, like phenomic or genomic selection, have the potential to increase the selection gain for potato breeding programs which are characterized by very large numbers of entries in early stages and the availability of very few tubers per entry in these stages. The objectives of this study were to (i) explore the capabilities of phenomic prediction based on drone-derived multispectral reflectance data in potato breeding by testing different prediction scenarios on a diverse panel of tetraploid potato material from all market segments and considering a broad range of traits, (ii) compare the performance of phenomic and genomic predictions, and (iii) assess the predictive power of mixed relationship matrices utilizing weighted SNP array and multispectral reflectance data...
March 6, 2024: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://read.qxmd.com/read/38443466/whole-genome-sequencing-of-tetraploid-potato-varieties-reveals-different-strategies-for-drought-tolerance
#18
JOURNAL ARTICLE
Florian Schilling, Christina Schumacher, Karin Köhl, Heike Sprenger, Joachim Kopka, Rolf Peters, Manuela Haas, Ellen Zuther, Renate Horn
Climate changes leading to increasingly longer seasonal drought periods in large parts of the world increase the necessity for breeding drought-tolerant crops. Cultivated potato (Solanum tuberosum), the third most important vegetable crop worldwide, is regarded as drought-sensitive due to its shallow root architecture. Two German tetraploid potato cultivars differing in drought tolerance and their F1-progeny were evaluated under various drought scenarios. Bulked segregant analyses were combined with whole-genome sequencing (BSA-Seq) using contrasting bulks of drought-tolerant and drought-sensitive F1-clones...
March 5, 2024: Scientific Reports
https://read.qxmd.com/read/38439049/three-near-complete-genome-assemblies-reveal-substantial-centromere-dynamics-from-diploid-to-tetraploid-in-brachypodium-genus
#19
JOURNAL ARTICLE
Chuanye Chen, Siying Wu, Yishuang Sun, Jingwei Zhou, Yiqian Chen, Jing Zhang, James A Birchler, Fangpu Han, Ning Yang, Handong Su
BACKGROUND: Centromeres are critical for maintaining genomic stability in eukaryotes, and their turnover shapes genome architectures and drives karyotype evolution. However, the co-evolution of centromeres from different species in allopolyploids over millions of years remains largely unknown. RESULTS: Here, we generate three near-complete genome assemblies, a tetraploid Brachypodium hybridum and its two diploid ancestors, Brachypodium distachyon and Brachypodium stacei...
March 4, 2024: Genome Biology
https://read.qxmd.com/read/38435133/atlas-florae-europaeae-notes-33-taxonomic-synopsis-of-east-european-species-of-the-cytisusratisbonensis-group-fabaceae
#20
JOURNAL ARTICLE
Alexander N Sennikov, Valery N Tikhomirov
A group of species of Cytisussect.Tubocytisus with strictly lateral inflorescences, commonly referred to as C.ratisbonensis s.l., is critically revised in Eastern Europe on the basis of morphology and comprehensive treatment of herbarium specimens and observations. Seven species and two presumed hybrids are recognised. Complete accounts are provided for each species, with synonyms, typifications, brief morphological descriptions, data on ecology and distributions, taxonomic and nomenclatural annotations. Cytisuspolonicus is described as new to science, separated from C...
2024: PhytoKeys
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