Recombination fraction in pre-recombinant inbred lines (PRERIL) - revisiting a century old problem in genetics DOI Creative Commons

Shizhong Xu,

José Osorio y Fortéa

BMC Genomics, Journal Year: 2024, Volume and Issue: 25(1)

Published: Sept. 2, 2024

Abstract Background Traditional recombinant inbred lines (RILs) are generated from repeated self-fertilization or brother-sister mating the F 1 hybrid of two parents. Compared with 2 population, RILs cumulate more crossovers between loci and thus increase number recombinants, resulting in an increased resolution genetic mapping. Since they to isogenic stage, another consequence heterozygosity reduction is variance power QTL detection. Self-fertilization primary form developing plants. Brother-sister way develop but small laboratory animals. To ensure that have at least 98% homozygosity, we need about seven generations 20 mating. Prior these called pre-recombinant (PRERIL). Phenotypic values traits PRERILs often collected not used perform mapping PRERILs, recombination fraction markers generation t for < 7 (selfing) (brother-sister mating) so genotypes flanked by can be inferred. Results In this study, developed formulas calculate fractions self-fertilization, mating, random contrast existing works topic, computer code construct transition matrix Markov chain genotype array consecutive generations, so-called recurrent equations. Conclusions We provide R functions using newly equations ordered array. With code, users PRERILs. Substantial time effort saved compared RILs.

Language: Английский

Harnessing promoter elements to enhance gene editing in plants: perspectives and advances DOI Creative Commons
Nikita Gondalia, Luis Felipe Quiroz, Linyi Lai

et al.

Plant Biotechnology Journal, Journal Year: 2025, Volume and Issue: unknown

Published: Feb. 27, 2025

Summary Genome‐edited plants, endowed with climate‐smart traits, have been promoted as tools for strengthening resilience against climate change. Successful plant gene editing (GE) requires precise regulation of the GE machinery, a process controlled by promoters, which drives its transcription through interactions factors (TFs) and RNA polymerase. While constitutive promoters are extensively used in constructs, their limitations highlight need alternative approaches. This review emphasizes promise tissue/organ specific well inducible enable targeted spatiotemporal manner no effects on other tissues. Advances synthetic biology paved way creation offering refined control over expression augmenting potential GE. The integration these novel systems presents significant opportunities conditional genome editing. Moreover, advent bioinformatic artificial intelligence is revolutionizing characterization regulatory elements, enhancing our understanding roles plants. Thus, this provides insights into strategic use promoter to enhance precision, efficiency specificity GE, setting stage innovative crop improvement strategies.

Language: Английский

Citations

0
Recombination fraction in pre-recombinant inbred lines (PRERIL) - revisiting a century old problem in genetics DOI Creative Commons

Shizhong Xu,

José Osorio y Fortéa

BMC Genomics, Journal Year: 2024, Volume and Issue: 25(1)

Published: Sept. 2, 2024

Abstract Background Traditional recombinant inbred lines (RILs) are generated from repeated self-fertilization or brother-sister mating the F 1 hybrid of two parents. Compared with 2 population, RILs cumulate more crossovers between loci and thus increase number recombinants, resulting in an increased resolution genetic mapping. Since they to isogenic stage, another consequence heterozygosity reduction is variance power QTL detection. Self-fertilization primary form developing plants. Brother-sister way develop but small laboratory animals. To ensure that have at least 98% homozygosity, we need about seven generations 20 mating. Prior these called pre-recombinant (PRERIL). Phenotypic values traits PRERILs often collected not used perform mapping PRERILs, recombination fraction markers generation t for < 7 (selfing) (brother-sister mating) so genotypes flanked by can be inferred. Results In this study, developed formulas calculate fractions self-fertilization, mating, random contrast existing works topic, computer code construct transition matrix Markov chain genotype array consecutive generations, so-called recurrent equations. Conclusions We provide R functions using newly equations ordered array. With code, users PRERILs. Substantial time effort saved compared RILs.

Language: Английский

Citations

0