Article
Plant Sciences
Wenxiang Li, Yi Yu, Xuanrong Chen, Qian Fang, Anqi Yang, Xinyu Chen, Lei Wu, Chengyu Wang, Dechuan Wu, Sihong Ye, Dexiang Wu, Genlou Sun
Summary: More methylation changes occur in the late interval of wheat seed development, with protein and starch synthesis-related pathways enriched. This study provides novel insights into the dynamic changes of m(6)A and its roles in wheat grain development.
Article
Biotechnology & Applied Microbiology
M. Amine Hassani, Ernest Oppong-Danquah, Alice Feurtey, Deniz Tasdemir, Eva H. Stukenbrocka
Summary: The wheat-pathogenic fungus Zymoseptoria tritici produces highly conserved secondary metabolites, while exhibiting immense variation in effector expression. This finding has significant implications for future crop protection strategies.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Plant Sciences
Inbar Bariah, Liel Gribun, Khalil Kashkush
Summary: Recent studies have emphasized the importance of transposable elements (TEs) in wheat as a major source of genetic variation. TEs occupy a large portion of the wheat genome and are involved in genomic rearrangements. However, their contribution to structural and functional variations in wheat genes is not fully understood.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Biotechnology & Applied Microbiology
Nikhil Kumar Singh, Thomas Badet, Leen Abraham, Daniel Croll
Summary: This study conducted a genome-wide association study (GWAS) on a highly polymorphic mapping population of Zymoseptoria tritici, identifying a major locus associated with significant variation in reproductive success and damage caused by the pathogen on wheat. The locus contained multiple families of transposable elements (TEs) and exhibited strong genomic defense mechanisms, indicating recent sequence evolution and rapid diversification. The combination of GWAS and population-scale genome analysis demonstrated the power of investigating major effect loci in pathogens.
Article
Biology
Longsheng Xing, Meijia Wang, Qiang He, Hongyu Zhang, Hanfei Liang, Qinghong Zhou, Yu Liu, Ze Liu, Yu Wang, Cailian Du, Yao Xiao, Jianan Liu, Wei Li, Guixia Liu, Huilong Du
Summary: This study provides a high-quality genome assembly of P. giganteum and reveals functional differentiation between the A and B subgenomes. Transcriptome analysis identifies complementary effects between the two subgenomes, contributing to biomass accumulation. Key candidate genes in the C4 photosynthesis pathway show sustained high expression across all developmental stages of P. giganteum.
Article
Biology
Nicole S. Paulat, Erin McGuire, Krishnamurthy Subramanian, Austin B. Osmanski, Diana D. Moreno-Santillan, David A. Ray, Jinchuan Xing
Summary: Bat genomes contain various types of transposable elements (TE) with distinct accumulation patterns over the past 40 million years. Comparative spatial analyses revealed species- and element-specific attraction of TE in the transcript and significant TE activity in regions adjacent to genes.
Article
Agronomy
Hongshen Wan, Jun Li, Shengwei Ma, Fan Yang, Liang Chai, Zehou Liu, Qin Wang, Zongjun Pu, Wuyun Yang
Summary: Genetic recombination and allopolyploidization can increase genetic recombination of the ancestral diploid D genome of wheat, helping to generate new allelic combinations and promote wheat evolution.
Article
Plant Sciences
Zhibin Zhang, Ruili Lv, Bin Wang, Hongwei Xun, Bao Liu, Chunming Xu
Summary: Allopolyploidy is a powerful genetic and evolutionary force that combines divergent genomes into a common nucleus. One of its striking features is the ability to generate rapid and saltational biological consequences through 'genome shock'. In this study, we analyzed the changes in genome-wide gene expression under diverse environmental conditions in a synthetic allotetraploid wheat, revealing that allopolyploidy caused large-scale changes in gene expression that were variable across conditions and exacerbated by stresses and chromosomal exchanges. Our results provide new insights into the direct impacts of allopolyploidy on condition-dependent changes in subgenome expression.
Article
Multidisciplinary Sciences
Yuval Ben-Abu, Mark Itsko
Summary: This study analyzed the metabolomes of wheat kernel samples to investigate the changes in metabolites during wheat domestication. The results revealed significant changes in plant defense metabolites, antioxidants, and plant hormones, suggesting their potential contribution to improving the agricultural fitness of wheat.
SCIENTIFIC REPORTS
(2022)
Article
Chemistry, Organic
Rakhee Saikia, Kwihwan Park, Hayato Masuda, Miki Itoh, Tsuyoshi Yamada, Hironao Sajiki, Sanjeev P. Mahanta, Ashim J. Thakur, Utpal Bora
Summary: The cost-effective cyanation of aryl iodides/bromides was achieved using CAN-DMF as a source of nitrogen, with Cu(II) salt as the catalyst. The mechanism involves an evolution of CN- leading to the synthesis of various aryl nitriles in moderate to good yields.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Lin-Feng Li, Zhi-Bin Zhang, Zhen-Hui Wang, Ning Li, Yan Sha, Xin-Feng Wang, Ning Ding, Yang Li, Jing Zhao, Ying Wu, Lei Gong, Fabrizio Mafessoni, Avraham A. Levy, Bao Liu
Summary: The study identified the donor of the common wheat B subgenome as a distinct and most likely extinct diploid species, differing from the still existing Aegilops species. It also found interspecific genetic introgressions during the evolution of the Triticum/Aegilops species complex. These newly assembled genome resources offer a new avenue for wheat improvement.
Article
Biochemistry & Molecular Biology
Daniel P. Cooke, David C. Wedge, Gerton Lunter
Summary: Genotyping from sequencing is essential in the molecular breeding of polyploid plants. We evaluated Octopus and other tools on polyploid data sets and found that Octopus has fewer errors in genotyping compared to other methods.
Article
Multidisciplinary Sciences
Ahmed Debit, Florent Charton, Priscillia Pierre-Elies, Chris Bowler, Helena Cruz de Carvalho
Summary: lncRNAs show differential expression patterns in the three distinct morphotypes of P. tricornutum, suggesting their potential involvement in morphotype identity. The major differences in DE genes between the stress-related oval morphotype and the fusiform morphotype can be attributed to hyposaline culture conditions rather than the morphotype itself.
SCIENTIFIC REPORTS
(2023)
Article
Agronomy
Jingchun Wu, Dengan Xu, Luping Fu, Ling Wu, Weihao Hao, Jihu Li, Yan Dong, Fengju Wang, Yuying Wu, Zhonghu He, Hongqi Si, Chuanxi Ma, Xianchun Xia
Summary: In this study, we conducted fine mapping and candidate gene analysis of the stripe rust resistance gene YrZM175 in the Chinese wheat cultivar Zhongmai 175. Through bulked segregant RNA-seq analysis, we identified a genomic interval on chromosome arm 2AL where YrZM175 is located and predicted a potential candidate gene for map-based cloning. Collinearity analysis and gene expression level analysis further supported the identification of the candidate gene. The fine mapping of YrZM175 provides a solid foundation for functional gene analysis and marker-assisted selection for improved stripe rust resistance in wheat.
THEORETICAL AND APPLIED GENETICS
(2022)
Article
Biochemistry & Molecular Biology
Anting Zhu, Mengmeng Liu, Zhitao Tian, Wei Liu, Xin Hu, Min Ao, Jingqi Jia, Taotao Shi, Hongbo Liu, Dongqin Li, Hailiang Mao, Handong Su, Wenhao Yan, Qiang Li, Caixia Lan, Alisdair R. Fernie, Wei Chen
Summary: This study investigated the relationship between metabolite modification and gene function in wheat. By profiling metabolic fragment enrichment in wheat leaves, the researchers identified 1,483 quantified metabolites that can be modified in an enzyme-catalyzed manner. Through genome-wide association studies, they were able to efficiently mine candidate genes associated with these metabolites. In further functional studies, a flavonoid pathway specific to Triticeae crops and its underlying metabolic gene cluster were elucidated. The researchers also reconstructed this pathway in rice using the major effect gene from the cluster. This study provides valuable insights into the genetic architecture of wheat and has implications for crop improvement.
Article
Plant Sciences
Elvis Katche, Roman Gaebelein, Zurianti Idris, Paula Vasquez-Teuber, Yu-tzu Lo, David Nugent, Jacqueline Batley, Annaliese S. Mason
Summary: The study investigates the hybridization of Brassica juncea and Brassica carinata (2n = BBAC) over six generations, revealing improved meiotic pairing behavior and fertility levels approaching those of the parent species. The hybrids contain a stable A/C genome formed from recombination of A and C-genome chromosomes. This provides experimental evidence that two genomes can come together to form a new, restructured genome in hybridization events between two allotetraploid species that share a common genome.
Article
Biology
Zhenling Lv, Zijuan Li, Meiyue Wang, Fei Zhao, Wenjie Zhang, Changping Li, Lei Gong, Yijng Zhang, Annaliese S. Mason, Bao Liu
Summary: The majority of homoeologous triad genes in the A and B subgenomes of polyploid wheat showed highly conserved histone modification patterns during domestication and ploidy transitions, while a subset of functionally relevant genes were trans-regulated by the D genome in hexaploid wheat. The overall histone modification levels were stable in most genes, but certain genes displayed differential modification and enrichment for specific gene ontology terms, indicating a complex regulatory network during evolution and domestication.
Article
Multidisciplinary Sciences
Said Dadshani, Boby Mathew, Agim Ballvora, Annaliese S. Mason, Jens Leon
Summary: Marker assisted breeding, facilitated by reference genome assemblies, can help produce cultivars adapted to changing environmental conditions. Our study used a LD-correction approach to overcome issues of anomalous linkage disequilibrium, while also analyzing genetic diversity changes over time and selective sweeps related to specific translocations in wheat.
SCIENTIFIC REPORTS
(2021)
Review
Agronomy
Daniela Quezada-Martinez, Charles P. Addo Nyarko, Sarah V. Schiessl, Annaliese S. Mason
Summary: Climate change will have various impacts on crop production, and utilizing wild relatives in breeding may enhance crop resistance to biotic and abiotic stresses, although this approach is challenging.
THEORETICAL AND APPLIED GENETICS
(2021)
Editorial Material
Genetics & Heredity
Charles Addo Nyarko, Annaliese S. Mason
Summary: Polyploids need to segregate homologous chromosomes correctly, which is not only determined by sequence similarity but also under strong genetic control that may vary between lineages. Factors such as partner availability and genome structure may also influence the level of sequence similarity required for crossover formation.
TRENDS IN GENETICS
(2022)
Article
Biochemistry & Molecular Biology
Daniela Quezada-Martinez, Jun Zou, Wenshan Zhang, Jinling Meng, Jacqueline Batley, Annaliese S. Mason
Summary: In this study, we crossed Brassica hexaploids resulting from different species combinations and found that different genotypes of Brassica hexaploids do not share a consensus pattern in genome rearrangements, and hybridization does not significantly improve genome stability. However, hybridization between different lineages is feasible and can be exploited for future genetics and breeding purposes.
Review
Agronomy
Christian Obermeier, Annaliese S. Mason, Torsten Meiners, Georg Petschenka, Michael Rostas, Torsten Will, Benjamin Wittkop, Nadine Austel
Summary: In the past, breeding for insect resistance or tolerance in oilseed rape/canola has been neglected due to the availability of insecticides and the complexity of high-throughput phenotyping. However, changes in political frameworks and the availability of new technologies have made breeding approaches for pest insect control attractive again. Researchers and breeders now have the opportunity to develop improved oilseed rape cultivars with multiple insect pest resistances/tolerances.
THEORETICAL AND APPLIED GENETICS
(2022)
Article
Plant Sciences
Fatemeh Orooji, Ghader Mirzaghaderi, Yi-Tzu Kuo, Joerg Fuchs
Summary: This study analyzed the repeat sequences and karyotypes of several Nigella species and found significant variations in genome size, repeat sequence content, and rDNA site number and localization. Based on karyotype and phylogenetic analysis, three karyotype groups were identified, contributing to a better understanding of the diversity in the genus Nigella.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Shaghayegh Mehravi, Gholam Ali Ranjbar, Hamid Najafi-Zarrini, Ghader Mirzaghaderi, Mehrdad Hanifei, Anita Alice Severn-Ellis, David Edwards, Jacqueline Batley
Summary: In this study, karyology and genome size of Pimpinella species in Iran were analyzed, revealing inter-specific variations. The findings provide insights for classification of the genus Pimpinella and suggest the potential existence of a new genus - Pseudopimpinella.
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Agronomy
Anamika Kashyap, Pooja Garg, Kunal Tanwar, Jyoti Sharma, Navin C. Gupta, Pham Thi Thu Ha, R. C. Bhattacharya, Annaliese S. Mason, Mahesh Rao
Summary: Crop wild relatives are wild relatives of cultivated crops that can contribute to crop improvement through their rich diversity. However, there are challenges in using them directly in breeding programs due to crossing barriers and undesirable genetics. Solutions are needed to harness the potential of these wild relatives effectively.
THEORETICAL AND APPLIED GENETICS
(2022)
Review
Plant Sciences
Elizabeth Ihien Katche, Annaliese S. Mason
Summary: Resynthesized rapeseed lines have recreated the historical hybridization between Brassica rapa and B. oleracea, providing valuable genetic resources for rapeseed breeding and insights into polyploid plant meiosis evolution. This review discusses the production of these lines through interspecific crosses, their resulting fertility and agronomically important traits, meiotic instability issues, and the potential role of meiosis genes and gene regulatory networks in stabilizing meiosis. The direct use of resynthesized and semi-resynthesized Brassica napus for hybrid breeding and the study of other agronomic traits is also explored.
CRITICAL REVIEWS IN PLANT SCIENCES
(2023)
Article
Genetics & Heredity
Elizabeth Ihien Katche, Antje Schierholt, Sarah-Veronica Schiessl, Fei He, Zhenling Lv, Jacqueline Batley, Heiko C. Becker, Annaliese S. Mason
Summary: Established allopolyploids are generally stable and fertile, while newly resynthesized allopolyploids are often infertile and meiotically unstable. The study aimed to identify the genetic factors responsible for genome stability and fertility in resynthesized rapeseed by characterizing genetic variations and analyzing meiosis gene homologs. The results support the hypothesis that allelic variants inherited from parental genotypes affect genome stability and fertility in resynthesized rapeseed.
G3-GENES GENOMES GENETICS
(2023)
Article
Biochemistry & Molecular Biology
Elvis Katche, Elizabeth Ihien Katche, Paula Vasquez-Teuber, Zurianti Idris, Yu-tzu Lo, David Nugent, Jun Zou, Jacqueline Batley, Annaliese S. Mason
Summary: Interspecific hybridization leads to the formation of new hybrid species and trait transfer, but the fate of hybrid lineages is not well studied. We crossed different genotypes of three Brassica allotetraploid species and found low fertility in the hybrids and their self-pollinated progeny. The retention of haploid genomes and the relationships between subgenomes determine hybridization outcomes in these species.
CHROMOSOME RESEARCH
(2023)
Article
Agronomy
Liru Wu, Tong Zhu, Huagang He, Xinyou Cao, Haosheng Li, Hongxing Xu, Mengshu Jia, Lipei Zhang, Jiancheng Song, Ghader Mirzaghaderi, Cheng Liu, Pengtao Ma
Summary: This study identified a new resistance gene PmLS5082 against powdery mildew in wheat through genetic analysis and RNA-Seq technology. By mapping and validating associated genes, important information for marker-assisted selection was provided.
Article
Horticulture
Meili Xiao, Huadong Wang, Xiaonan Li, Annaliese S. Mason, Donghui Fu
Summary: Rapeseed, an important oil crop, has found a new use as an ornamental plant. However, its short flowering period and limited flower color pose challenges for its ornamental potential. This review summarizes the possible problems and discusses measures to prolong the flowering period and create diverse flower colors in rapeseed.
