Population-based resequencing analysis of wild and cultivated barley revealed weak domestication signal of selection and bottleneck in the Rrs2 scald resistance gene region

Genome ◽  
2012 ◽  
Vol 55 (2) ◽  
pp. 93-104 ◽  
Author(s):  
Yong-Bi Fu
Keyword(s):  
Resistance Gene ◽  
Plant Disease Resistance ◽  
Wild Barley ◽  
Population Based ◽  
Genomic Region ◽  
Plant Domestication ◽  
Neutrality Tests ◽  
Cultivated Barley ◽  
Barley Domestication ◽  
Made In

Many plant disease resistance (R) genes have been cloned, but the potential of utilizing these plant R-gene genomic resources for genetic inferences of plant domestication history remains unexplored. A population-based resequencing analysis of the genomic region near the Rrs2 scald resistance gene was made in 51 accessions of wild and cultivated barley from 41 countries. Fifteen primer pairs were designed to sample the genomic region with a total length of 10 406 bp. More nucleotide diversity was found in wild (π = 0.01846) than cultivated (π = 0.01507) barley samples. Three distinct groups of 29 haplotypes were detected for all 51 samples, and they were well mixed with wild and cultivated barley samples from different countries and regions. The neutrality tests by Tajima’s D were not significant, but a significant (P < 0.05) case by Fu and Li’s D* and F* was found in the barley cultivar samples. The estimate of selection intensity by Ka/Ks was 0.691 in wild barley and 0.580 in cultivated barley. The estimate of the minimum recombination events was 16 in wild barley and 19 in cultivated barley. A coalescence simulation revealed a bottleneck intensity of 1.5 to 2 since barley domestication. Together, the domestication signal in the genomic region was weak both in human selection and domestication bottleneck.

scholarly journals Genotypic Difference in the Responses to Nitrogen Fertilizer Form in Tibetan Wild and Cultivated Barley

Plants ◽  
2021 ◽  
Vol 10 (3) ◽  
pp. 595
Author(s):  
Shama Naz ◽  
Qiufang Shen ◽  
Jonas Lwalaba Wa Lwalaba ◽  
Guoping Zhang
Keyword(s):  
Wild Barley ◽  
Growth Parameters ◽  
Inorganic Nitrogen ◽  
N Uptake ◽  
Total Soluble Protein ◽  
Organic N ◽  
Genotypic Difference ◽  
N Availability ◽  
Tibetan Wild Barley ◽  
Cultivated Barley

Nitrogen (N) availability and form have a dramatic effect on N uptake and assimilation in plants, affecting growth and development. In the previous studies, we found great differences in low-N tolerance between Tibetan wild barley accessions and cultivated barley varieties. We hypothesized that there are different responses to N forms between the two kinds of barleys. Accordingly, this study was carried out to determine the response of four barley genotypes (two wild, XZ16 and XZ179; and two cultivated, ZD9 andHua30) under 4Nforms (NO3−, NH4+, urea and glycine). The results showed significant reduction in growth parameters such as root/shoot length and biomass, as well as photosynthesis parameters and total soluble protein content under glycine treatment relative to other N treatments, for both wild and cultivated barley, however, XZ179 was least affected. Similarly, ammonium adversely affected growth parameters in both wild and cultivated barleys, with XZ179 being severely affected. On the other hand, both wild and cultivated genotypes showed higher biomass, net photosynthetic rate, chlorophyll and protein in NO3− treatment relative to other three N treatments. It may be concluded that barley undisputedly grows well under inorganic nitrogen (NO3−), however in response to the organic N wild barley prefer glycine more than cultivated barely.

Head-HUNT: Validity and Reliability of a Headache Questionnaire in a Large Population-Based Study in Norway

Cephalalgia ◽  
2000 ◽  
Vol 20 (4) ◽  
pp. 244-251 ◽  
Author(s):  
K Hagen ◽  
J-A Zwart ◽  
L Vatten ◽  
LJ Stovner ◽  
G Bovim
Keyword(s):  
Chronic Headache ◽  
International Headache Society ◽  
Large Population ◽  
Population Based ◽  
Validity And Reliability ◽  
Population Based Study ◽  
Patient Status ◽  
Self Administered Questionnaire ◽  
Migrainous Headache ◽  
Made In

We have assessed the validity and reliability of a self-administered headache questionnaire used in the 'Nord-Trøndelag Health Survey 1995-97 (HUNT)' in Norway, by blindly comparing questionnaire-based headache diagnoses with those made in a clinical interview of a sample of the participants. Restrictive questionnaire-based diagnostic criteria for migraine, assessed according to modified criteria of the International Headache Society, performed excellently in selecting 'definite' migraine patients (100% positive predictive value). The best agreement concerning migraine diagnoses was achieved by using a liberal set of criteria (k 0.59). Similar agreement was found evaluating patient status as headache sufferers, and as sufferers from frequent headaches (>6 days per month) (k 0.57 and 0.50, respectively). The k values of nonmigrainous headache and chronic headache (>14 days per month) were 0.43 and 0.44, respectively. The results suggest that our self-administered questionnaire may be suitable in identifying a population with 'definite' migraine, and the questionnaire is an acceptable instrument in determining the prevalence in Nord-Trøndelag of headache sufferers, migraine, non-migrainous headache, and frequent or chronic headache sufferers.

scholarly journals Quantifying contact patterns in response to COVID-19 public health measures in Canada

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Gabrielle Brankston ◽  
Eric Merkley ◽  
David N. Fisman ◽  
Ashleigh R. Tuite ◽  
Zvonimir Poljak ◽  
...  
Keyword(s):  
Public Health ◽  
Population Based ◽  
Skewed Distribution ◽  
Cross Sectional ◽  
Health Measures ◽  
Contact Patterns ◽  
Region Of Residence ◽  
Control Procedures ◽  
The Impact ◽  
Made In

Abstract Background A variety of public health measures have been implemented during the COVID-19 pandemic in Canada to reduce contact between individuals. The objective of this study was to provide empirical contact pattern data to evaluate the impact of public health measures, the degree to which social contacts rebounded to normal levels, as well as direct public health efforts toward age- and location-specific settings. Methods Four population-based cross-sectional surveys were administered to members of a paid panel representative of Canadian adults by age, gender, official language, and region of residence during May (Survey 1), July (Survey 2), September (Survey 3), and December (Survey 4) 2020. A total of 4981 (Survey 1), 2493 (Survey 2), 2495 (Survey 3), and 2491 (Survey 4) respondents provided information about the age and setting for each direct contact made in a 24-h period. Contact matrices were constructed and contacts for those under the age of 18 years imputed. The next generation matrix approach was used to estimate the reproduction number (Rt) for each survey. Respondents with children under 18 years estimated the number of contacts their children made in school and extracurricular settings. Results Estimated Rt values were 0.49 (95% CI: 0.29–0.69) for May, 0.48 (95% CI: 0.29–0.68) for July, 1.06 (95% CI: 0.63–1.52) for September, and 0.81 (0.47–1.17) for December. The highest proportion of reported contacts occurred within the home (51.3% in May), in ‘other’ locations (49.2% in July) and at work (66.3 and 65.4% in September and December). Respondents with children reported an average of 22.7 (95% CI: 21.1–24.3) (September) and 19.0 (95% CI 17.7–20.4) (December) contacts at school per day per child in attendance. Conclusion The skewed distribution of reported contacts toward workplace settings in September and December combined with the number of reported school-related contacts suggest that these settings represent important opportunities for transmission emphasizing the need to support and ensure infection control procedures in both workplaces and schools.

Population genetics and phylogenetic analysis of the vrs1 nucleotide sequence in wild and cultivated barley

Genome ◽  
2014 ◽  
Vol 57 (4) ◽  
pp. 239-244 ◽  
Author(s):  
Xifeng Ren ◽  
Yonggang Wang ◽  
Songxian Yan ◽  
Dongfa Sun ◽  
Genlou Sun
Keyword(s):  
Population Genetics ◽  
Phylogenetic Analysis ◽  
Genetic Variation ◽  
Hordeum Vulgare ◽  
Nucleotide Diversity ◽  
Wild Barley ◽  
Haplotype Diversity ◽  
Lateral Spikelet ◽  
Cultivated Barley ◽  
Barley Population

Spike morphology is a key characteristic in the study of barley genetics, breeding, and domestication. Variation at the six-rowed spike 1 (vrs1) locus is sufficient to control the development and fertility of the lateral spikelet of barley. To study the genetic variation of vrs1 in wild barley (Hordeum vulgare subsp. spontaneum) and cultivated barley (Hordeum vulgare subsp. vulgare), nucleotide sequences of vrs1 were examined in 84 wild barleys (including 10 six-rowed) and 20 cultivated barleys (including 10 six-rowed) from four populations. The length of the vrs1 sequence amplified was 1536 bp. A total of 40 haplotypes were identified in the four populations. The highest nucleotide diversity, haplotype diversity, and per-site nucleotide diversity were observed in the Southwest Asian wild barley population. The nucleotide diversity, number of haplotypes, haplotype diversity, and per-site nucleotide diversity in two-rowed barley were higher than those in six-rowed barley. The phylogenetic analysis of the vrs1 sequences partially separated the six-rowed and the two-rowed barley. The six-rowed barleys were divided into four groups.

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