The Plant Genome

NEW ✨ A powerful molecular marker to detect mutations at #sorghum LOW GERMINATION STIMULANT 1 The parasitic weed Striga reduces sorghum yields. Striga can be controlled by mutation of sorghum gene called LOW GERMINATION STIMULANT 1. Functional loss of this gene (lgs1) reduces the amount of Striga germination stimulant released by host roots. Adedayo Adeyanju and coauthors developed a robust LGS1 marker that detects lgs1 mutations. To check its utility among diverse sets of germplasm, they ran the marker on 406 lines of the sorghum association panel (SAP). The SAP contains 23 lines (6%) with lgs1 mutations that involve a complete loss of this gene. Two to four genes surrounding LGS1 are also missing in some mutants. The deletion size distinguishes four lgs1 alleles in the panel. All 23 members of the SAP carrying lgs1 alleles had low Striga germination stimulant activity. The LGS1 marker is useful for both detecting sources of lgs1 and breeding Striga resistance into new sorghum varieties. Read the full report: https://lnkd.in/gWy7F3Rc

NEW ✨ Candidate selective sweeps in US #wheat populations Modern plant breeding in the United States has improved and adapted wheat varieties to diverse wheat-growing regions, states, and use cases for over a century. Selection by wheat breeders is likely to have left signs of selection in many locations in the wheat genome. In a newly published study, Sajal S. and coauthors used three complementary statistics to look for such signs of selection or candidate selective sweeps in 63 US wheat populations classified by geographic regions, states, whether they are spring- or fall-planted, and market class. Some of these locations in the wheat genome may be crucial to adaptation of wheat to a specific region or use case. Continued improvement of wheat will partly rely on the use of novel genes from unrelated wheat populations. Exploration of these candidate selective sweeps may aid wheat breeders to continue improving wheat by preserving the adaptative genome regions while adding and testing novel genes. Read the full report: https://lnkd.in/g38D4qhT Xianran Li

Peer Review Week is an important opportunity to thank our many reviewers and editors who contribute their time and expertise to maintain the quality of our journals and the scientific literature at large. View last year's list of The Plant Genome reviewers: https://lnkd.in/gXn5GXGh

New Issue Alert 📣 Read the September issue of The Plant Genome, now online: https://lnkd.in/g6XtWySt On the cover: High-throughput genotyping is crucial for mapping genes controlling traits, genome prediction, breeding selection, and protection of breed traits. Two genotyping assays, SoySNP50K and BARCSoySNP6K, are commonly used by soybean researchers. However, breeders also need assays with lower marker densities and lower cost for other research purposes such as genomic selection, selection of hybrid parents, and especially early identification of desirable progeny from thousands of breeding lines. In addition, soybean researchers have reported markers associated with important traits or genes controlling traits. Incorporating these trait-related markers into assays will greatly facilitate early generation line screening and reduce time and the cost of field and greenhouse testing. Qijian Song and coauthors have developed two highly efficient marker assays with core sets of 3K and 1K markers, including trait-associated markers. The cover features a soybean seedling overcoming the soil barrier. #OpenAccess #plantgenome

NEW ✨ Exploring genomic feature selection: A comparative analysis of #GWAS and #machinelearning algorithms in a large-scale #soybean dataset Modern genetic research relies on vast amounts of data obtained through advanced technologies. This flood of information makes it difficult to find the important genetic markers linked to complex traits. A new study by Hawlader Al-Mamun(Mamun) and coauthors addresses this challenge by exploring different ways to sift through the data to improve the association of genetic markers with traits. They focused on soybean, using a dataset with millions of genetic markers from nearly a thousand different soybean lines. They looked at traditional methods such as genome-wide association studies alongside newer machine learning techniques. By comparing these methods, the authors aimed to see which ones are best at picking out the most important genetic features for predicting traits. Their findings shed light on the strengths and weaknesses of different feature selection methods in genetic research. This can help researchers choose the best approach for their studies, ultimately improving our understanding of genetic traits. Read the full report: https://lnkd.in/g3JvqPCX Monica Danilevicz Dave Edwards

🧬🌱New Publication Alert!🧬🌱 Check out our new article published in The Plant Genome by Wiley. Special congratulations to Sibel BAHADIR, who played a pivotal role in the success of this article. Read the full article here: https://lnkd.in/d_C3BgSA 🧬Utilizing CRISPR/Cas9-mediated knockout, mutant lines for SlFATB1 and SlFATB3 were successfully generated and exhibited diverse mutation types. 🧬SlFATB1/SlFATB3 mutated lines have significant changes in fatty acid composition, with linoleic and linolenic acid content variations. 🧬The study also explored the impact of FAT gene knockout on tomato leaf architecture through scanning electron microscopy, providing insights into potential morphological alterations. 🧬Knocking out of FAT genes resulted in a significant reduction in both trichome and stoma density. Thanks to our supervisor, Prof.Dr Musa Kavas for his support and guidance. Mohamed Farah Abdulla Safa Hacıkamiloğlu #CRISPR-Cas9 #GeneEditing #Tomato #FattyAcid

NEW ✨ Improving complex agronomic and domestication traits in the perennial grain crop intermediate #wheatgrass with genetic mapping and genomic prediction The perennial grass intermediate wheatgrass is being domesticated for its potential food applications while providing substantial ecosystem services. The University of Minnesota intermediate wheatgrass breeding program has been improving this crop using traditional breeding and modern genomic tools such as genetic mapping and genomic selection. In a recently published study, Prabin Bajgain and coauthors report results from genetic characterization of several important traits in this crop via the application of association mapping and evaluate the usability of the results in genomic prediction models. They also report that the implications of including parents of a breeding population are used in the genomic prediction training set. The authors expect the results presented in this study to inform intermediate wheatgrass breeders, as well as other perennial small grains breeding teams. Read the full #openaccess report: https://lnkd.in/gFYVspRG Hannah Stoll James Anderson

🔓 Publish in The Plant Genome—Your APCs May Be Covered 🔓 Great news for authors! Your open access Article Publication Charges (APCs) may be covered by a transformational agreement with our publisher, Wiley. If your institution or funder is partnered with Wiley through an Open Access Account, your APCs could be covered in full or part, allowing you to publish in our journal without the financial burden. 🌐 Why Publish Open Access? Open access ensures that your research reaches a global audience, increases visibility, and enhances impact. 🔍 What You Need to Do: Check if your institution or funder has a Wiley Open Access Account. 🔗 https://lnkd.in/dXbqSqk Submit your article and publish open access today! Don’t miss this opportunity to publish your work in The Plant Genome without the worry of APCs. Explore your options and make your research accessible to all! #OpenAccess #AcademicPublishing #ScholarlyPublishing #ScienceForAll

🌱 Calling All Researchers: Submit a Proposal for a Special Collection 🌱 We are excited to invite proposals for Special Collections in The Plant Genome. Special Collections are a unique opportunity to spotlight emerging research areas, foster scientific exchange from symposia, and provide comprehensive overviews of the latest advancements in plant genetics. Whether you've organized a recent symposium, led a collaborative project, or are passionate about a specific topic within plant genetics, we encourage you to submit your ideas. Special Sections typically range from 6 to 25 manuscripts and are curated by leaders in the field, offering a platform for high-impact research. What to Include in Your Proposal: ➡ Title of the Special Collection ➡ An abstract detailing the motivation, scope, and potential contributions ➡ A list of potential contributors ➡ Suggested guest associate editors ➡ Timeline for submission, review, and publication Submit your proposal today: https://lnkd.in/gF3rxUNb #PlantGenetics #AcademicPublishing #SpecialCollections #CallForProposals

NEW ✨ Genome-wide association study of carotenoids in #maize kernel In a new study, the contents of four carotenoids in 244 maize inbred lines were detected and about three million single nucleotide polymorphisms (SNPs) for genome-wide association study to preliminarily analyze the genetic mechanism of maize kernel carotenoids. Weiwei Chen and coauthors identified 826 quantitative trait loci (QTLs) were significantly associated with carotenoids contents, and two key candidate genes Zm00001d029526 (CYP18) and Zm00001d023336 (wrky91) were obtained. In addition, they found a germplasm IL78 with higher carotenoids. The results of this study can provide a theoretical basis for screening genes that guide kernel carotenoids selection breeding. Read the full report: https://lnkd.in/g9HYgk-D