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Grant support

The research leading to these results has received funding from the Ministerio de Ciencia, Innovacion y Universidades, Spain (grant CGL2016-75904-C2-2-P). R. Pong-Wong is funded by the European Union's Horizon 2020 research and innovation programme under the Grant Agreement nffi 772787 (SMARTER) and the Biotechnology and Biological Sciences Research Council through Institute Strategic Programme Grant funding (BBS/E/D/30002275).

Analysis of institutional authors

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Changes in Allele Frequencies When Different Genomic Coancestry Matrices Are Used for Maintaining Genetic Diversity

Publicated to:Genes. 12 (5): 673- - 2021-05-01 12(5), DOI: 10.3390/genes12050673

Authors: Morales-Gonzalez, Elisabeth; Fernandez, Jesus; Pong-Wong, Ricardo; Toro, Miguel Angel; Villanueva, Beatriz;

Affiliations

‎ INIA, Dept Mejora Genet, Km 7-5, Madrid 28040, Spain - Author
‎ Univ Edinburgh, R D SVS, Roslin EH25 9RG, Midlothian, Scotland - Author
‎ Univ Edinburgh, Roslin Inst, Genet & Genom, Roslin EH25 9RG, Midlothian, Scotland - Author
‎ Univ Politecn Madrid, Dept Prod Agr, Madrid 28040, Spain - Author

Abstract

A main objective in conservation programs is to maintain genetic variability. This can be achieved using the Optimal Contributions (OC) method that optimizes the contributions of candidates to the next generation by minimizing the global coancestry. However, it has been argued that maintaining allele frequencies is also important. Different genomic coancestry matrices can be used on OC and the choice of the matrix will have an impact not only on the genetic variability maintained, but also on the change in allele frequencies. The objective of this study was to evaluate, through stochastic simulations, the genetic variability maintained and the trajectory of allele frequencies when using two different genomic coancestry matrices in OC to minimize the loss of diversity: (i) the matrix based on deviations of the observed number of alleles shared between two individuals from the expected numbers under Hardy-Weinberg equilibrium (theta(LH)); and (ii) the matrix based on VanRaden's genomic relationship matrix (theta(VR)). The results indicate that the use of theta(LH) resulted in a higher genetic variability than the use of theta(VR). However, the use of theta(VR) maintained allele frequencies closer to those in the base population than the use of theta(LH).

Keywords

AdultAllele frequenciesAnimalAnimalsArticleBiological modelCase reportClinical articleConsanguinityConsequencesConservationDeleterious mutationsEndangered speciesFemaleGene frequencyGene linkage disequilibriumGenetic diversityGenetic fitnessGenetic polymorphismGenetic variabilityGenomic coancestry matrixHumanHuman experimentLinkage disequilibriumMaleManagementModels, geneticOptimal contributionsPedigreePhylogenyPolymorphism, geneticReproductive fitnessSelectionSimulationStochastic modelTools

Quality index

Bibliometric impact. Analysis of the contribution and dissemination channel

The work has been published in the journal Genes due to its progression and the good impact it has achieved in recent years, according to the agency WoS (JCR), it has become a reference in its field. In the year of publication of the work, 2021, it was in position 72/175, thus managing to position itself as a Q2 (Segundo Cuartil), in the category Genetics & Heredity. Notably, the journal is positioned en el Cuartil Q2 para la agencia Scopus (SJR) en la categoría Genetics.

From a relative perspective, and based on the normalized impact indicator calculated from the Field Citation Ratio (FCR) of the Dimensions source, it yields a value of: 1.18, which indicates that, compared to works in the same discipline and in the same year of publication, it ranks as a work cited above average. (source consulted: Dimensions Jun 2025)

Specifically, and according to different indexing agencies, this work has accumulated citations as of 2025-06-10, the following number of citations:

  • Scopus: 4
  • OpenCitations: 4

Impact and social visibility

From the perspective of influence or social adoption, and based on metrics associated with mentions and interactions provided by agencies specializing in calculating the so-called "Alternative or Social Metrics," we can highlight as of 2025-06-10:

  • The use, from an academic perspective evidenced by the Altmetric agency indicator referring to aggregations made by the personal bibliographic manager Mendeley, gives us a total of: 8.
  • The use of this contribution in bookmarks, code forks, additions to favorite lists for recurrent reading, as well as general views, indicates that someone is using the publication as a basis for their current work. This may be a notable indicator of future more formal and academic citations. This claim is supported by the result of the "Capture" indicator, which yields a total of: 8 (PlumX).

With a more dissemination-oriented intent and targeting more general audiences, we can observe other more global scores such as:

  • The Total Score from Altmetric: 4.35.
  • The number of mentions on the social network X (formerly Twitter): 6 (Altmetric).

It is essential to present evidence supporting full alignment with institutional principles and guidelines on Open Science and the Conservation and Dissemination of Intellectual Heritage. A clear example of this is:

  • The work has been submitted to a journal whose editorial policy allows open Open Access publication.

Leadership analysis of institutional authors

This work has been carried out with international collaboration, specifically with researchers from: United Kingdom.