scholarly journals Population genomics identifies the origin and signatures of selection of Korean weedy rice

2016 ◽  
Vol 15 (3) ◽  
pp. 357-366 ◽  
Author(s):  
Qiang He ◽  
Kyu-Won Kim ◽  
Yong-Jin Park
Keyword(s):  
Population Genomics ◽  
Weedy Rice ◽  
Signatures Of Selection ◽  
Selection Of

Amazing grass: developmental genetics of maize domestication

2005 ◽  
Vol 33 (6) ◽  
pp. 1502-1506 ◽  
Author(s):  
E. Vollbrecht ◽  
B. Sigmon
Keyword(s):  
Reverse Genetics ◽  
Population Genomics ◽  
Evolutionary Developmental Biology ◽  
Developmental Genetics ◽  
Crop Domestication ◽  
Modern Maize ◽  
Signatures Of Selection ◽  
Maize Domestication ◽  
Plant Form ◽  
Evo Devo

Crop plants were domesticated by prehistoric farmers through artificial selection to provide a means of feeding the human population. This article discusses the developmental genetics of crop domestication and improvement, including the historical framework and recent approaches in maize and other grasses. In many cases, selecting for a plant form that correlates with productivity involves controlling meristem activity. In the domestication of modern maize from its progenitor Zea mays ssp. parviglumis, QTL (quantitative trait loci) mapping, genetics and population genomics approaches have identified several genes that contain signatures of selection. Only a few genes involved in the derivation of the highly productive maize ear have been identified, including teosinte glume architecture1 and ramosa1. Future prospects hinge on forward and reverse genetics, as well as on other approaches from the developing discipline of evo-devo (evolutionary developmental biology).

scholarly journals Cross-Resistance to Imazapic and Imazapyr in a Weedy Rice (Oryza sativa) Biotype Found in Malaysia

2018 ◽  
Vol 36 (0) ◽  
Author(s):  
M. DILIPKUMAR ◽  
N.R. BURGOS ◽  
T.S. CHUAH ◽  
S. ISMAIL
Keyword(s):  
Rice Field ◽  
Rice Cultivar ◽  
Management Tool ◽  
Cross Resistance ◽  
Weedy Rice ◽  
Effective Management ◽  
Herbicide Resistant ◽  
First Case ◽  
Direct Seeded ◽  
Selection Of

ABSTRACT: The Clearfield® rice production system is an effective management tool for weedy rice and other weeds in the direct-seeded rice culture. However, if farmers cultivating the Clearfield® rice disregard stewardship recommendations, the industry could face a problem of herbicide-resistant weedy rice which would occur through the selection of outcrosses. This study aimed to confirm imidazolinone-resistant weedy rice in Malaysia. The resistant weedy rice (R-WR) was found to be 67 fold more resistant to OnDuty® (premix of imazapic and imazapyr) than the susceptible weedy rice (S-WR) based on the GR50 values (rate that causes 50% inhibition of shoot growth). The Clearfield® rice cultivar was 32-fold more tolerant to OnDuty® than the S-WR. Furthermore, the R-WR was 54 and 89 fold more resistant to imazapic and imazapyr applied separately than the S-WR, respectively. The Clearfield® rice was 140- and 40-fold more tolerant to imazapic and imazapyr, respectively than the S-WR. The R-WR biotype was susceptible to non-selective herbicides glyphosate and glufosinate, as well as the selective graminicide quizalofop. Oxadiazon controlled the R-WR biotype, but pretilachlor was ineffective. The present study documented the first case of weedy rice that was cross-resistant to imazapic and imazapyr in Malaysian Clearfield® rice field.

scholarly journals A Whole Genome Re-Sequencing Based GWA Analysis Reveals Candidate Genes Associated with Ivermectin Resistance in Haemonchus contortus

Genes ◽  
2020 ◽  
Vol 11 (4) ◽  
pp. 367 ◽  
Author(s):  
Sawar Khan ◽  
Ayesha Nisar ◽  
Jianqi Yuan ◽  
Xiaoping Luo ◽  
Xueqin Dou ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Haemonchus Contortus ◽  
Population Genomics ◽  
Small Ruminants ◽  
Track Record ◽  
Genome Wide ◽  
Signatures Of Selection ◽  
Parasitic Worms ◽  
Important Parasite

The most important and broad-spectrum drug used to control the parasitic worms to date is ivermectin (IVM). Resistance against IVM has emerged in parasites, and preserving its efficacy is now becoming a serious issue. The parasitic nematode Haemonchus contortus (Rudolphi, 1803) is economically an important parasite of small ruminants across the globe, which has a successful track record in IVM resistance. There are growing evidences regarding the multigenic nature of IVM resistance, and although some genes have been proposed as candidates of IVM resistance using lower magnification of genome, the genetic basis of IVM resistance still remains poorly resolved. Using the full magnification of genome, we herein applied a population genomics approach to characterize genome-wide signatures of selection among pooled worms from two susceptible and six ivermectin-resistant isolates of H. contortus, and revealed candidate genes under selection in relation to IVM resistance. These candidates also included a previously known IVM-resistance-associated candidate gene HCON_00148840, glc-3. Finally, an RNA-interference-based functional validation assay revealed the HCON_00143950 as IVM-tolerance-associated gene in H. contortus. The possible role of this gene in IVM resistance could be detoxification of xenobiotic in phase I of xenobiotic metabolism. The results of this study further enhance our understanding on the IVM resistance and continue to provide further evidence in favor of multigenic nature of IVM resistance.

scholarly journals Genetic diversity and signatures of selection of drug resistance in Plasmodium populations from both human and mosquito hosts in continental Equatorial Guinea

2013 ◽  
Vol 12 (1) ◽  
pp. 114 ◽  
Author(s):  
Cristina Mendes ◽  
Patrícia Salgueiro ◽  
Vicenta Gonzalez ◽  
Pedro Berzosa ◽  
Agustin Benito ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Drug Resistance ◽  
Equatorial Guinea ◽  
Signatures Of Selection ◽  
Selection Of

scholarly journals Signatures of selection underpinning rapid coral adaptation to the world’s warmest reefs

2022 ◽  
Vol 8 (2) ◽  
Author(s):  
Edward G. Smith ◽  
Khaled M. Hazzouri ◽  
Jae Young Choi ◽  
Patrice Delaney ◽  
Mohammed Al-Kharafi ◽  
...  
Keyword(s):  
Population Genomics ◽  
Signatures Of Selection

Population genomics reveals loci associated with coral adaptation to thermally extreme reefs.

scholarly journals Population genomics of Populus trichocarpa identifies signatures of selection and adaptive trait associations

2014 ◽  
Vol 46 (10) ◽  
pp. 1089-1096 ◽  
Author(s):  
Luke M Evans ◽  
Gancho T Slavov ◽  
Eli Rodgers-Melnick ◽  
Joel Martin ◽  
Priya Ranjan ◽  
...  
Keyword(s):  
Population Genomics ◽  
Populus Trichocarpa ◽  
Adaptive Trait ◽  
Signatures Of Selection ◽  
Trait Associations

scholarly journals Restriction site-associated DNA from Python-implemented Digestion Simulations (RApyDS): a companion tool for RAD sequencing experimental design

F1000Research ◽  
2021 ◽  
Vol 10 ◽  
pp. 360
Author(s):  
Kristianne Arielle Gabriel ◽  
Maria Rejane Nepacina ◽  
Francis Tablizo ◽  
Carlo Lapid ◽  
Mark Lenczner Mendoza ◽  
...  
Keyword(s):  
Restriction Site ◽  
Reference Genome ◽  
Population Genomics ◽  
Restriction Enzymes ◽  
Evaluation Metrics ◽  
Genomic Feature ◽  
Reduced Representation ◽  
Standard Set ◽  
Selection Of ◽  
Page Electrophoresis

Reduced representation sequencing is a practical approach for obtaining genetic variations from a random subsample of the genome. RADseq (Restriction Site-Associated DNA Sequencing), as one of the more popular reduced representation approaches, is currently being used in a wide array of applications including marker development, phylogenetics, and population genomics. A crucial step in designing a RADseq experiment is the selection of one or a pair of restriction enzymes (RE) that will result in sufficient density of loci to meet the objectives of the study, which is not straightforward because of difficulties in obtaining a standard set of REs that can generally be applied to RADseq experimental designs. Here we present RApyDS, a simulation tool that provides users with evaluation metrics to aid in choosing suitable REs based on their target RADseq design. RApyDS can perform simulations for single- or double-digest RADseq, preferably with a supplied reference genome. The tool outputs an overview page, electrophoresis visualization, mapping of restriction cut sites, and RAD loci density across the genome. If supplied with an annotation file, the program can also output evaluation metrics for a specified genomic feature. The tool is currently available at https://github.com/pgcbioinfo/rapyds.

Sign in / Sign up

Export Citation Format

Share Document