Article
Plant Sciences
Mukhtor M. Darmanov, Abdusalom K. Makamov, Mirzakamol S. Ayubov, Naim N. Khusenov, Zabardast T. Buriev, Shukhrat E. Shermatov, Ilkhom B. Salakhutdinov, Khurshida A. Ubaydullaeva, Jurabek K. Norbekov, Maftuna M. Kholmuradova, Sardor E. Narmatov, Ilyos S. Normamatov, Ibrokhim Y. Abdurakhmonov
Summary: Marker-assisted selection (MAS) is an effective method in cotton breeding to shorten breeding time, reduce resources and efforts. In this study, two novel MAS-derived cotton cultivars were developed by transferring LD-blocks with superior fiber quality QTLs from donor genotypes to recipient cultivars through backcrossing. The resulting cultivars showed improved fiber length, strength, uniformity and micronaire compared to the original parents. These results demonstrate the feasibility and success of MAS in cotton breeding.
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Plant Sciences
Fakhriddin N. Kushanov, Ozod S. Turaev, Dilrabo K. Ernazarova, Bunyod M. Gapparov, Barno B. Oripova, Mukhlisa K. Kudratova, Feruza U. Rafieva, Kuvandik K. Khalikov, Doston Sh. Erjigitov, Mukhammad T. Khidirov, Madina D. Kholova, Naim N. Khusenov, Roza S. Amanboyeva, Sukumar Saha, John Z. Yu, Ibrokhim Y. Abdurakhmonov
Summary: The diverse economically important traits in cotton genetic resources can be utilized in breeding to create high-yielding elite cultivars with superior fiber quality. Decoding genomes of cotton species has greatly facilitated the process of generating large-scale DNA markers and identifying QTLs to confirm candidate genes for marker-assisted selection (MAS)-based breeding programs. With advances in QTL mapping and genome-wide-association study approaches, DNA markers associated with valuable traits significantly accelerate breeding processes by selection at the DNA or gene level.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Biochemistry & Molecular Biology
Mehdi Younessi-Hamzekhanlu, Oliver Gailing
Summary: This article discusses the progress achieved in dissecting the disease resistance architecture of forest trees through genomics and transcriptomics studies. By using association and QTL mapping studies, markers closely linked to the target traits can be identified, providing a basis for marker-assisted selection and shortening the breeding period in perennial forest trees. Additionally, genomic selection methods can improve the efficiency and speed of breeding programs.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biology
Andekelile Mwamahonje, John Saviour Yaw Eleblu, Kwadwo Ofori, Santosh Deshpande, Tileye Feyissa, Pangirayi Tongoona
Summary: Sorghum is a climate-resilient crop that can be improved for drought tolerance and yield using marker-assisted selection techniques.
Article
Plant Sciences
Michaela Jung, Beat Keller, Morgane Roth, Maria Jose Aranzana, Annemarie Auwerkerken, Walter Guerra, Mehdi Al-Rifai, Mariusz Lewandowski, Nadia Sanin, Marijn Rymenants, Frederique Didelot, Christian Dujak, Carolina Font i Forcada, Andrea Knauf, Francois Laurens, Bruno Studer, Helene Muranty, Andrea Patocchi
Summary: The study using the multi-environment apple reference population demonstrated genetic architecture and genomic predictive abilities for 30 quantitative traits in apple; GWAS revealed 59 stable and 277 location-specific associations, 69.2% of which were novel; genotype by environment interactions accounted for up to 24% of the phenotypic variability.
HORTICULTURE RESEARCH
(2022)
Article
Agronomy
Elssa Pandit, Swapnil Pawar, Saumya Ranjan Barik, Shakti Prakash Mohanty, Jitendriya Meher, Sharat Kumar Pradhan
Summary: The study demonstrates the improvement of submergence stress tolerance and grain yield in the Maudamani rice variety through marker-assisted backcross breeding. Progenies carrying the target QTLs were detected, leading to increased yield. The pyramided lines showed tolerance and higher yield compared to the parents.
Article
Fisheries
Afees Abiola Ajasa, Solomon Antwi Boison, Hans Magnus Gjoen, Marie Lillehammer
Summary: The Atlantic salmon industry in northern Europe is facing increasing losses due to amoebic gill disease (AGD). Genomic selection (GS) can potentially help reduce outbreaks and improve resistance to AGD. Linkage disequilibrium (LD) was evaluated in six Atlantic salmon breeding populations, and the use of genomic information for selection was investigated. The study found that LD decreased with increased physical distance between markers, and long-range LD was observed across all chromosomes. GS models had better performance than the pedigree-based best linear unbiased prediction (PBLUP) model. The use of genomic best linear unbiased prediction (GBLUP) model was recommended for the genetic evaluation of AGD resistance.
Review
Agronomy
Liqiang Song, Ruihui Wang, Xueju Yang, Aimin Zhang, Dongcheng Liu
Summary: Wheat, an essential cereal crop, provides a significant amount of calories and proteins consumed by humans. Wheat breeders face challenges in developing new varieties to meet production requirements. Marker-assisted selection (MAS) has advantages in terms of time-saving, cost-effectiveness, and goal orientation. This review provides updated information on different molecular markers and their potential applications in wheat breeding programs.
Review
Biochemistry & Molecular Biology
Gloria De Mori, Guido Cipriani
Summary: Breeding fruit trees is challenging due to their large trees, long juvenile periods, and environmental variability. The use of molecular markers to assist breeders in selecting genetically superior parents and progeny has been a difficult task. Important fruit traits such as size, weight, sugar and acid content, and ripening time are of interest to fruit breeders.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Tormod Haraldstad, Thrond O. Haugen, Esben M. Olsen, Torbjorn Forseth, Erik Hoglund
Summary: Renewable energy projects like hydropower plants contribute to meeting energy demands and mitigating climate change, but they can alter environments and impact fish migration conditions, affecting population adaptations. Monitoring Atlantic salmon smolts at a hydropower plant showed that behavioral traits influenced their choice between fish passage and turbine intake during migration, with potential implications for genetic diversity and future challenges.
SCIENTIFIC REPORTS
(2021)
Article
Multidisciplinary Sciences
Dieimes Bohry, Helaine Christine Cancela Ramos, Pedro Henrique Dias dos Santos, Marcela Santana Bastos Boechat, Fernanda Abreu Santana Aredes, Adriana Azevedo Vimercati Pirovani, Messias Gonzaga Pereira
Summary: The objective of this study was to perform whole-genome genotyping of papaya, predict the effects of identified variants, and develop a list of ripening-related genes with linked variants. A total of 106 ripening-related genes were found to be associated with 460 variants, which can be converted into PCR markers for genetic mapping, diversity studies, and marker-assisted selection in papaya breeding programs.
SCIENTIFIC REPORTS
(2021)
Article
Agronomy
Caleo Panhoca de Almeida, Jean Fausto de Carvalho Paulino, Isabella Laporte Santos, Miklos Maximiliano Bajay, Joao Guilherme Ribeiro Goncalves, Cassia Regina Limonta Carvalho, Sergio Augusto Morais Carbonell, Alisson Fernando Chiorato, Luciana Lasry Benchimol-Reis
Summary: Marker-assisted backcrossing was used to develop two Carioca bean lines with high resistance to angular leaf spot, showing superior performance in other agronomic traits compared to the recurrent parent.
Article
Plant Sciences
Uma Maheshwar Singh, Shilpi Dixit, Shamshad Alam, Shailesh Yadav, Vinukonda Vishnu Prasanth, Arun Kumar Singh, Challa Venkateshwarlu, Ragavendran Abbai, Abhilash Kumar Vipparla, Jyothi Badri, Tilatoo Ram, Madamshetty Srinivas Prasad, Gouri Sankar Laha, Vikas Kumar Singh, Arvind Kumar
Summary: Marker-assisted forward breeding coupled with simultaneous crossing was used to develop introgression lines (ILs) with improved drought, BLB, and blast resistance in an elite rice cultivar. The ILs showed significantly higher yield advantages compared to the elite parent Lalat under drought stress, and were highly resistant to BLB and blast disease. Six ILs with similar grain quality characteristics to Lalat were identified, demonstrating the potential of this approach for rapidly combining multiple stresses in rice.
Article
Plant Sciences
Zhankui Zeng, Cheng Guo, Xuefang Yan, Junqiao Song, Chunping Wang, Xiaoting Xu, Yuanfeng Hao
Summary: Seed vigor is an important trait in wheat breeding, and this study identified multiple quantitative trait loci (QTLs) associated with various seed vigor traits in a doubled haploid population derived from a cross between Yangmai 16 and Zhongmai 895. The QTLs were located on chromosomes 2B, 3D, 4B, 4D, 5A, 5B, 6A, 6B, 6D, 7A, and 7D, explaining significant portions of the phenotypic variances. The study also developed KASP markers for a QTL cluster on chromosome 4D and validated them in a panel of wheat accessions. These findings provide valuable genetic resources for improving seed vigor in wheat breeding programs.
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Biochemistry & Molecular Biology
Daraz Ahmad, Zhongwei Zhang, Haroon Rasheed, Xiaoyong Xu, Jinsong Bao
Summary: Potato, as an important crop, can benefit from genetic mapping and transgenic approaches to improve both yield and nutritional value, offering a solution to the increasing global population issue.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biotechnology & Applied Microbiology
Carolina P. Moraleda, Diego Robledo, Alejandro P. Gutierrez, Jorge del-Pozo, Jose M. Yanez, Ross D. Houston
Summary: The resistance to SRS is a polygenic trait, and this study has identified relevant genes and pathways that are likely to play a role in mediating genetic resistance through genome-wide association analysis and RNA-sequencing.
Article
Biotechnology & Applied Microbiology
O. Gervais, A. Barria, A. Papadopoulou, R. L. Gratacap, B. Hillestad, A. E. Tinch, S. A. M. Martin, D. Robledo, R. D. Houston
Summary: The study found that the heritability of ISAV resistance is moderate with a polygenic architecture, but a significant quantitative trait locus was detected on chromosome 13. A mild up-regulation of the interferon pathway characterizes the response to the virus in heart samples from this population of Atlantic salmon, and candidate genes showing differential expression between samples with high and low breeding values for resistance were identified.
Review
Biology
Robert W. A. Potts, Alejandro P. Gutierrez, Carolina S. Penaloza, Tim Regan, Tim P. Bean, Ross D. Houston
Summary: Molluscan aquaculture is important for global seafood production, but faces challenges from infectious disease outbreaks. Selective breeding, genomic technologies, and genome editing show promise in improving genetic resistance to disease in molluscs, with tailored approaches needed due to their unique characteristics.
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2021)
Article
Fisheries
Tim Regan, Tim P. Bean, Tim Ellis, Andrew Davie, Stefano Carboni, Herve Migaud, Ross D. Houston
Summary: This article discusses the state of aquaculture breeding and stock supply in the UK, and how innovation in genetics technologies can help achieve the Scottish Government's ambitious target of doubling its aquaculture industry by 2030. The focus is on the four most important UK aquaculture species and contrasts the level of selective breeding and genomics technologies used in each sector. The success of Atlantic salmon farming through large-scale investment in modern breeding programmes is highlighted, along with the potential application of similar technologies to the UK shellfish sectors.
REVIEWS IN AQUACULTURE
(2021)
Review
Fisheries
Jennifer C. Nascimento-Schulze, Tim P. Bean, Ross D. Houston, Eduarda M. Santos, Matthew B. Sanders, Ceri Lewis, Robert P. Ellis
Summary: Aquaculture accounts for half of global seafood production, with marine bivalve aquaculture showing great potential for sustainable expansion. Artificial spat propagation and selective breeding offer rapid gains for the industry, though unique characteristics of bivalves present challenges for genetic improvement.
REVIEWS IN AQUACULTURE
(2021)
Article
Biology
Carolina Penaloza, Alejandro P. Gutierrez, Lel Eory, Shan Wang, Ximing Guo, Alan L. Archibald, Tim P. Bean, Ross D. Houston
Summary: A chromosome-level assembly for the Pacific oyster (C. gigas) was created and annotated, providing a valuable resource for genetics and genomics studies, as well as selective breeding in aquaculture.
Review
Biotechnology & Applied Microbiology
Ye Hwa Jin, Diego Robledo, John M. Hickey, Mike J. McGrew, Ross D. Houston
Summary: The use of surrogate broodstock technology provides new opportunities for improving genome editing, preserving aquatic genetic resources, and reducing generation intervals in aquaculture breeding, ultimately expediting genetic gain and dissemination of high quality production animals.
BIOTECHNOLOGY ADVANCES
(2021)
Article
Evolutionary Biology
Tim Regan, Lewis Stevens, Carolina Penaloza, Ross D. Houston, Diego Robledo, Tim P. Bean
Summary: Bivalve molluscs, with 20,000 species globally, are crucial for ecosystem engineering and food security, yet little is known about their evolutionary adaptation strategies. Recent advances in long-read sequencing have allowed for accurate genome assemblies and revealed expansions in gene families across bivalve genomes as a response to evolutionary pressures.
GENOME BIOLOGY AND EVOLUTION
(2021)
Article
Biotechnology & Applied Microbiology
Jon Pavelin, Ye Hwa Jin, Remi L. Gratacap, John B. Taggart, Alastair Hamilton, David W. Verner-Jeffreys, Richard K. Paley, Carl-johan Rubin, Stephen C. Bishop, James E. Bron, Diego Robledo, Ross D. Houston
Summary: The study identified nae1 as the causative gene underlying the major QTL affecting resistance to IPNV in Atlantic salmon, providing further evidence for the critical role of neddylation in host-pathogen interactions. The results also highlight the value of combining high-throughput genomics approaches with targeted genome editing to understand the genetic basis of disease resistance.
Article
Biotechnology & Applied Microbiology
C. Penaloza, T. Manousaki, R. Franch, A. Tsakogiannis, A. K. Sonesson, M. L. Aslam, F. Allal, L. Bargelloni, R. D. Houston, C. S. Tsigenopoulos
Summary: SNP arrays are powerful tools for studying the genetic basis of complex traits in European seabass and gilthead seabream, showing high conversion rates and repeatability. These arrays enable efficient genotyping and exploration of population structure and haplotype sharing in diverse fish populations.
Correction
Ecology
Agustin Barria, Trong Quoc Trinh, Mahirah Mahmuddin, Carolina Penaloza, Athina Papadopoulou, Ophelie Gervais, V. Mohan Chadag, John A. H. Benzie, Ross D. Houston
Article
Ecology
Agustin Barria, Trong Quoc Trinh, Mahirah Mahmuddin, Carolina Penaloza, Athina Papadopoulou, Ophelie Gervais, V. Mohan Chadag, John A. H. Benzie, Ross D. Houston
Summary: Enhancing host resistance to infectious disease through genetic markers presents a potential genetic solution for disease control in farmed animals, as demonstrated in a study on resistance to Tilapia lake virus in Nile tilapia.
Article
Genetics & Heredity
Agustin Barria, John A. H. Benzie, Ross D. Houston, Dirk-Jan De Koning, Hugues de Verdal
Summary: This study investigated the genetic architecture of feed-efficiency traits in Nile tilapia breeding populations and demonstrated the potential of genomic selection to improve feed efficiency. By mapping genomic regions associated with these traits and identifying candidate genes, it was found that genomic prediction accuracy was significantly higher than using pedigree records, with a SNP density of approximately 5,000 SNPs being sufficient for accurate prediction.
FRONTIERS IN GENETICS
(2021)
Article
Fisheries
Pierre Boudry, Francois Allal, Muhammad L. Aslam, Luca Bargelloni, Tim P. Bean, Sophie Brard-Fudulea, Marine S. O. Brieuc, Federico C. F. Calboli, John Gilbey, Pierrick Haffray, Jean-Baptiste Lamy, Romain Morvezen, Catherine Purcell, Paulo A. Prodohl, Marc Vandeputte, Geoffrey C. Waldbieser, Anna K. Sonesson, Ross D. Houston
Summary: Selective breeding has been successfully utilized in improving profitability and sustainability of aquatic species, and the implementation of genomic selection aims to further predict breeding value. While the potential of genomic selection is evident, customized species-specific applications are necessary to maximize its benefits for the aquaculture sector.
AQUACULTURE REPORTS
(2021)
Article
Microbiology
Sophie Fridman, Smaragda Tsairidou, Nilantha Jayasuriya, Halina Sobolewska, Alastair Hamilton, Carlos Lobos, Ross D. Houston, Hamish Rodger, James Bron, Tharangani Herath
Summary: This study aimed to develop a novel gross pathological scoring system for assessing complex or multifactorial gill disease in farmed Atlantic salmon. The scoring system combines presumptive or healed amoebic gill disease (AGD) with other types of gill lesions, providing a standardized approach to characterize severe proliferative pathologies in affected gills.
