Reply to the comment by Morales et al. on “Population genetics reveal Myotis keenii (Keen’s myotis) and Myotis evotis (long-eared myotis) to be a single species”

2021 ◽  
pp. 423-432
Author(s):  
C.L. Lausen ◽  
Michael F. Proctor ◽  
David Paetkau ◽  
David W. Nagorsen ◽  
Purnima Govindarajulu ◽  
...  
Keyword(s):  
Population Genetics ◽  
Population Structure ◽  
Single Species ◽  
Distinct Species ◽  
Background Information ◽  
Distribution Data ◽  
Supporting Evidence ◽  
Post Mortem ◽  
The Impact ◽  
New Evidence

A.E. Morales et al. (2021. Can. J. Zool. 99(5): 415–422) provided no new evidence to alter the conclusions of C.L. Lausen et al. (2019. Can. J. Zool. 97(3): 267–279). We present background information, relevant comparisons, and clarification of analyses to further strengthen our conclusions. The genesis of the original “evotis–keenii” study in British Columbia (Canada) was to differentiate Myotis keenii (Merriam, 1895) (Keen’s myotis), with one of the smallest North American bat distributions, from sympatric Myotis evotis (H. Allen, 1864) (long-eared myotis), using something other than the suggested post-mortem skull size comparison, but no differentiating trait could be found, leading to the molecular genetics examination of C.L. Lausen et al. (2019). We present cumulative data that rejects the 1979 hypothesis of M. keenii as a distinct species. A.E. Morales et al. (2021) inaccurately portray C.L. Lausen et al.’s (2019) question and results; present inaccurate morphological and outdated distribution data; overstate the impact of homoplasy without supporting evidence; and misinterpret evidence of population structure.

scholarly journals Isolation-By-Distance-and-Time in a stepping-stone model

2015 ◽  
Author(s):  
Nicolas Duforet-Frebourg ◽  
Montgomery Slatkin
Keyword(s):  
Principal Component Analysis ◽  
Population Genetics ◽  
Population Structure ◽  
Isolation By Distance ◽  
Principal Component ◽  
Joint Effect ◽  
Stepping Stone ◽  
Ancient Times ◽  
The Impact ◽  
Stepping Stone Model

With the great advances in ancient DNA extraction, population genetics data are now made of geographically separated individuals from both present and ancient times. However, population genetics theory about the joint effect of space and time has not been thoroughly studied. Based on the classical stepping--stone model, we develop the theory of Isolation by Distance and Time. We derive the correlation of allele frequencies between demes in the case where ancient samples are present in the data, and investigate the impact of edge effects with forward-in-time simulations. We also derive results about coalescent times in circular/toroidal models. As one of the most common way to investigate population structure is to apply principal component analysis, we evaluate the impact of this theory on plots of principal components. Our results demonstrate that time between samples is a non-negligible factor that requires new attention in population genetics.

scholarly journals SNP barcodes provide higher resolution than microsatellite markers to measure Plasmodium vivax population genetics

2020 ◽  
Vol 19 (1) ◽  
Author(s):  
Abebe A. Fola ◽  
Eline Kattenberg ◽  
Zahra Razook ◽  
Dulcie Lautu-Gumal ◽  
Stuart Lee ◽  
...  
Keyword(s):  
Population Genetics ◽  
Population Structure ◽  
Microsatellite Markers ◽  
Plasmodium Vivax ◽  
Malaria Transmission ◽  
Snp Markers ◽  
North Coast ◽  
High Quality ◽  
Catchment Areas ◽  
The Impact

Abstract Background Genomic surveillance of malaria parasite populations has the potential to inform control strategies and to monitor the impact of interventions. Barcodes comprising large numbers of single nucleotide polymorphism (SNP) markers are accurate and efficient genotyping tools, however may need to be tailored to specific malaria transmission settings, since ‘universal’ barcodes can lack resolution at the local scale. A SNP barcode was developed that captures the diversity and structure of Plasmodium vivax populations of Papua New Guinea (PNG) for research and surveillance. Methods Using 20 high-quality P. vivax genome sequences from PNG, a total of 178 evenly spaced neutral SNPs were selected for development of an amplicon sequencing assay combining a series of multiplex PCRs and sequencing on the Illumina MiSeq platform. For initial testing, 20 SNPs were amplified in a small number of mono- and polyclonal P. vivax infections. The full barcode was then validated by genotyping and population genetic analyses of 94 P. vivax isolates collected between 2012 and 2014 from four distinct catchment areas on the highly endemic north coast of PNG. Diversity and population structure determined from the SNP barcode data was then benchmarked against that of ten microsatellite markers used in previous population genetics studies. Results From a total of 28,934,460 reads generated from the MiSeq Illumina run, 87% mapped to the PvSalI reference genome with deep coverage (median = 563, range 56–7586) per locus across genotyped samples. Of 178 SNPs assayed, 146 produced high-quality genotypes (minimum coverage = 56X) in more than 85% of P. vivax isolates. No amplification bias was introduced due to either polyclonal infection or whole genome amplification (WGA) of samples before genotyping. Compared to the microsatellite panels, the SNP barcode revealed greater variability in genetic diversity between populations and geographical population structure. The SNP barcode also enabled assignment of genotypes according to their geographic origins with a significant association between genetic distance and geographic distance at the sub-provincial level. Conclusions High-throughput SNP barcoding can be used to map variation of malaria transmission dynamics at sub-national resolution. The low cost per sample and genotyping strategy makes the transfer of this technology to field settings highly feasible.

scholarly journals Population genetics ofMycobacterium tuberculosiscomplex in Scotland analysed by pulsed-field gel electrophoresis

1995 ◽  
Vol 114 (1) ◽  
pp. 153-160 ◽  
Author(s):  
E. S. Olson ◽  
K. J. Forbes ◽  
B. Watt ◽  
T. H. Pennington
Keyword(s):  
Genetic Diversity ◽  
Population Genetics ◽  
Mycobacterium Tuberculosis ◽  
Population Structure ◽  
Gel Electrophoresis ◽  
Distinct Species ◽  
Pulsed Field Gel Electrophoresis ◽  
Pulsed Field ◽  
Limited Genetic Diversity

SUMMARYThe results of typing of 121 strains in theMycobacterium tuberculosiscomplex by PFGE are presented. Every isolate from patients in Scotland over a 3-month period forM. tuberculosisand for 1 year forM. boviswere included along with several laboratory strains including those of BCG. The PFGE results suggest that the population structure of all the strains in this complex is distinctly simple with limited genetic diversity and also suggest thatM. bovisis not a distinct species.

scholarly journals European lobster stocking requires comprehensive impact assessment to determine fishery benefits

2014 ◽  
Vol 72 (suppl_1) ◽  
pp. i35-i48 ◽  
Author(s):  
Charlie D. Ellis ◽  
David J. Hodgson ◽  
Carly L. Daniels ◽  
Dominic P. Boothroyd ◽  
R. Colin A. Bannister ◽  
...  
Keyword(s):  
Population Genetics ◽  
Population Dynamics ◽  
Population Structure ◽  
North America ◽  
Sustainable Management ◽  
Economic Benefits ◽  
Basic Knowledge ◽  
European Lobster ◽  
The Impact ◽  
Key Questions

Abstract Historically, hatcheries in Europe and North America attempted to contribute to the conservation and enhancement of clawed lobster stocks, but lacked monitoring programmes capable of assessing success. In the 1990s, this perspective was changed by the results of restocking and stock enhancement experiments that inserted microwire tags into hatchery-reared juvenile European lobsters (Homarus gammarus) before release. This allowed recapture in sufficient numbers to prove that lobsters had survived and recruited to the mature fishable stock. However, evidence of recruitment still failed to answer key questions about the ultimate ecological and economic benefits. As a result, a growing number of lobster stocking ventures remain hindered by a lack of clear evidence of the effects of their stocking schemes. This review evaluates these experiments and related studies on other fished species, summarizes key findings, and identifies data and knowledge gaps. Although studies of fitness in cultured lobsters provide some of the most encouraging results from the wider field of hatchery-based stocking, the limitations of physical tagging technology have significantly hindered appraisals of stocking impacts. We lack basic knowledge of lobster ecology and population dynamics, especially among prerecruits, and of the impact of stocking on wild lobster population genetics. We advocate the use of genetic methods to further our understanding of population structure, rearing processes, and stocking success. We also recommend that more focused and comprehensive impact assessments are required to provide a robust endorsement or rejection of stocking as a viable tool for the sustainable management of lobster fisheries.

Should Attitudinal Views toward Innovation Development Play a Role in Policy in Peripheral EU Regions?: New Evidence from Vouchers Program in Northern Ireland

2018 ◽  
Vol 6 (2) ◽  
pp. 121-137
Author(s):  
Sean M. McDonald ◽  
Remi C. Claire ◽  
Alastair H. McPherson
Keyword(s):  
Economic Development ◽  
Northern Ireland ◽  
Policy Design ◽  
Regional Economic Development ◽  
Innovation Development ◽  
Regional Economic ◽  
Eu Regions ◽  
Future Policy ◽  
The Impact ◽  
New Evidence

The impact and effectiveness of policies to support collaboration for Research & Development (R&D) and Innovation is critical to determining the success of regional economic development. (O’Kane, 2008) The purpose of this paper is to evaluate the level of success of the Innovation Vouchers Program operated by Invest Northern Ireland (Invest NI) from 2009 to 2013 and address if attitudinal views towards innovation development should play in a role in future policy design in peripheral EU regions. 

WikiRecs primary care: developing rapid recommendations for primary care through effective collaboration between systematic review and guideline teams

2018 ◽  
Vol 68 (suppl 1) ◽  
pp. bjgp18X697085
Author(s):  
Trudy Bekkering ◽  
Bert Aertgeerts ◽  
Ton Kuijpers ◽  
Mieke Vermandere ◽  
Jako Burgers ◽  
...  
Keyword(s):  
Systematic Review ◽  
Primary Care ◽  
Clinical Practice ◽  
Primary Care Physicians ◽  
Urinary Stones ◽  
Care Practice ◽  
Supporting Evidence ◽  
Supervised Exercise ◽  
Review Team ◽  
New Evidence

BackgroundThe WikiRecs evidence summaries and recommendations for clinical practice are developed using trustworthy methods. The process is triggered by studies that may potentially change practice, aiming at implementing new evidence into practice fast.AimTo share our first experiences developing WikiRecs for primary care and to reflect on the possibilities and pitfalls of this method.MethodIn March 2017, we started developing WikiRecs for primary health care to speed up the process of making potentially practice-changing evidence in clinical practice. Based on a well-structured question a systematic review team summarises the evidence using the GRADE approach. Subsequently, an international panel of primary care physicians, methodological experts and patients formulates recommendations for clinical practice. The patient representatives are involved as full guideline panel members. The final recommendations and supporting evidence are disseminated using various platforms, including MAGICapp and scientific journals.ResultsWe are developing WikiRecs on two topics: alpha-blockers for urinary stones and supervised exercise therapy for intermittent claudication. We did not face major problems but will reflect on issues we had to solve so far. We anticipate having the first WikiRecs for primary care available at the end of 2017.ConclusionThe WikiRecs process is a promising method — that is still evolving — to rapidly synthesise and bring new evidence into primary care practice, while adhering to high quality standards.

Does Board Independence Increase Firm Value? Evidence from Closed-End Funds

2019 ◽  
pp. 1-24
Author(s):  
Matthew E. Souther
Keyword(s):  
Instrumental Variables ◽  
Firm Value ◽  
Board Independence ◽  
Difference In Differences ◽  
Cross Sectional ◽  
Closed End Funds ◽  
The Impact ◽  
New Evidence

Researchers disagree about the impact of board independence on firm value. The disagreement generally stems from the endogenous nature of board appointments. I add new evidence to this discussion by using a sample of closed-end funds to document the value-enhancing effects of independent boards. Using cross-sectional, difference-in-differences, and instrumental variables techniques, I address these endogeneity concerns and find consistent evidence that board independence is associated with higher firm value.

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