Ivan Dario Soto-Calderón

Ivan Dario Soto-Calderón
University of Antioquia | UdeA · Instituto de Biología

BSc. Biol, MSc, PhD

About

65
Publications
6,139
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Introduction
Ivan Dario Soto-Calderón currently works at the Instituto de Biología, University of Antioquia. Ivan does research in Evolutionary Biology and Conservation Genetics.
Additional affiliations
January 2005 - June 2012
University of New Orleans
Position
  • Research Assistant
February 2003 - present
University of Antioquia
Position
  • Professor (Associate)
Education
January 2005 - June 2012
University of New Orleans
Field of study
  • Conservation Biology

Publications

Publications (65)
Article
Full-text available
The Barcode of Life initiative was originally motivated by the large number of species, taxonomic difficulties and the limited number of expert taxonomists. Colombia has 1,610 freshwater fish species and comprises the second largest diversity of this group in the world. As genetic information continues to be limited, we constructed a reference coll...
Article
Full-text available
Despite the wide distribution of the red howler monkey in Colombia, wild populations are affected by hunting, trafficking, and habitat fragmentation. The diversity and current genetic structure of the species were studied in Otún Quimbaya Fauna and Flora Sanctuary and other regions across northern-central Colombia using noninvasive methods. Genetic...
Preprint
The Barcoding was proposed motivated by the mismatch between the low number of taxonomists that contrasts with the large number of species, the method requires the construction of reference collections of DNA sequences that represent existing biodiversity. Freshwater fishes are key indicators for understanding biogeography around the world. Colombi...
Chapter
Habitat loss and fragmentation, illegal trade, and other anthropogenic activities cause the population decline of wild species including primates. The white-footed tamarin (Saguinus leucopus) is highly affected by habitat loss and illegal traffic in northwest Colombia. Few studies have been carried out on the species levels of genetic diversity and...
Article
Full-text available
Studbooks are databases of individual genealogical records of ex situ populations. Since they are an essential tool in management and planning, we conducted a search of studbook reports to explore historical trends in breeding programs of Neotropical primates and implications for ex situ conservation. We accessed two databases: one made by the Worl...
Article
Full-text available
The great diversity of species in urban centers in Colombia contrasts with the rapid and intense degradation of the habitats where this diversity occurs. Given the importance of these environments for urban biological conservation and the increasing pressure on them, we studied the composition of the mammal community in the basin of La Gómez creek,...
Article
Full-text available
The great diversity of species in urban centers in Colombia contrasts with the rapid and intense degradation of the habitats where this diversity occurs. Given the importance of these environments for urban biological conservation and the increasing pressure on them, we studied the composition of the mammal community in the basin of La Gómez creek,...
Article
Background: Two biotypes of Aberdeen Angus cattle breed, known as Old Type and New Type, that differ in their origin and beef production are formally recognized. In Colombia, this breed has been commercialized for approximately 80 years. Studies on the origin, kinship and levels of genetic diversity of this breed in Colombian herds are scarce, yet...
Article
Full-text available
This article is intended for inclusion in the Special Issue on Primate Hybridization and Hybrid Zones. It was however published in a separate issue, Volume 39 Issue 6 and is available at 10.1007/s10764-018-0044-8.
Article
Full-text available
Incomplete reproductive isolation and hybridization is relatively frequent in primates. However, no cases of hybridization between formally recognized species have been reported in tamarins (genus Saguinus), a highly specious group of Neotropical primates. Here, we provide evidence from different sources to demonstrate three cases of hybridization...
Article
An automated multiplex PCR assay of 10 polymorphic microsatellite loci was optimized here in Senepol bovine cattle. Allele frequencies were estimated for Colombian herds. The power of this set of markers for parentage and kinship analyses was also tested. Population genetic parameters, combined probability of identity (CPI) and combined probabiliti...
Article
Full-text available
Among primates, the Neotropical Callitrichid monkeys (tamarins and marmosets) exhibit a particular ability to adapt to disturbed and urbanized environments. However, little is known about physiological and health status in contrasting ecological contexts. An example of adaptation to urban environments is the white-footed tamarin (Saguinus leucopus)...
Conference Paper
Full-text available
Along with howler and capuchin monkeys, white-footed tamarins are the most smuggled primates in North-West Colombia. This is reflected by the large number of confiscated animals and releases into the wild, whose effect on the historical population genetic structure of the species is unknown. We thus aimed to assess natural levels of genetic variati...
Article
Full-text available
Although captive populations of western gorilla have been maintained in the United States for over a century, little is known about the geographic origins and genetic composition of the current zoo population. Furthermore, although previous mitochondrial analyses have shown that free-range gorilla populations exhibit substantial regional differenti...
Conference Paper
Full-text available
El tití gris (Saguinus leucopus) es un primate catalogado En Peligro de extinción por la Unión Internacional para la Conservación de la Naturaleza (UICN). Sin embargo, el género Saguinus exhibe cierta plasticidad adaptativa a parches de bosques perturbados y zonas urbanas. El tití gris fue descrito por primera vez en jurisdicción de Medellín donde...
Conference Paper
El tití gris, Saguinus leucopus, es un primate endémico y amenazado de Colombia. Aunque el holotipo de la especie fue descrito por Günther en 1876 en jurisdicción de Medellín, el rápido e intenso desarrollo urbano ha diezmado considerablemente las poblaciones en la región y constreñido la distribución geográfica de la especie. A pesar de esto aún a...
Conference Paper
Full-text available
El tití gris (Saguinus leucopus – Callitrichidae) es un primate endémico colombiano que se encuentra en Peligro (EN) (UICN) debido a la pérdida del hábitat y la extracción ilegal. Pocos estudios se han realizado sobre los niveles de diversidad y distribución de la composición genética, fundamentales para entender la historia natural y definir linea...
Conference Paper
El estudio de individuos en cautiverio de primates Neotropicales ha permitido conocer aspectos básicos de su biología. Sin embargo las condiciones medioambientales pueden determinar diferencias ecológicas y fisiológicas en poblaciones silvestres. En el caso del tití gris (Saguinus leucopus), primate endémico colombiano, diferentes parámetros fisiol...
Article
Full-text available
The Western and Eastern species of gorillas (Gorilla gorilla and Gorilla beringei) began diverging in the mid-Pleistocene, but in a complex pattern with ongoing gene flow following their initial split. We sequenced the complete mitochondrial genomes of 1 Eastern and 1 Western gorilla to provide the most accurate date for their mitochondrial diverge...
Article
Full-text available
While much of the natural history of Neotropical primates has been revealed through studies conducted in captive individuals, environmental factors may impose ecological and physiological differences in free-range populations. For the white-footed tamarin (Saguinus leucopus), a primate endemic to Northwest Colombia, physiological parameters that ha...
Conference Paper
El tití gris (Saguinus leucopus; Cebidae, Callitrichinae) es uno de los primates americanos con más estrecha distribución, siendo endémico del noroeste Colombiano. Aunque se encuentra en Peligro (UICN) debido a la pérdida del hábitat y la extracción ilegal, poco se sabe sobre los niveles de diversidad y distribución de la composición genética, fund...
Conference Paper
Full-text available
El gorila occidental de tierras bajas (Gorilla gorilla gorilla) presenta marcada estructura genética donde los diferentes haplogrupos mitocondriales exhiben distribución geográfica restringida. Los gorilas presentes actualmente en zoológicos estadounidenses descienden de gorilas occidentales salvajes capturados entre 1820s y 1970s y aunque presenta...
Conference Paper
Wild western lowland gorillas (Gorilla gorilla gorilla) exhibit strong population genetic structure across much of their natural range and mitochondrial haplogroups are geographically well defined. Western gorillas currently present in North American zoos all show high levels of genetic diversity. Captive gorillas in the USA are descended from free...
Conference Paper
Full-text available
The White-footed tamarin (Saguinus leucopus) is an endangered species endemic to North-west Colombia. Although there is an ongoing conservation plan, there has not been any systematic study of the population structure, ecological interactions or natural history of this species. This study aims to identify the most prevalent blood and fecal parasite...
Article
Full-text available
Although nuclear copies of mitochondrial DNA (numts) can originate from any portion of the mitochondrial genome, evidence from humans suggests that more variable parts of the mitochondrial genome, such as the mitochondrial control region (MCR), are under-represented in the nucleus. This apparent deficit might arise from the erosion of sequence iden...
Article
Full-text available
Using Y chromosome genetic markers we studied the lineage composition and distribution in the most common surnames in 471 males from the municipality of Marinilla and its zone of influence, the municipality of Aranzazu (department of Caldas) and a group of samples from the general population of Medellin (Antioquia). Despite a variable rate of coanc...
Conference Paper
Full-text available
Estimates of genetic divergence are essential for understanding species’ biogeography and taxonomy. The use of such data from mitochondrial DNA (mtDNA) in addressing questions of the evolutionary history of gorillas has lagged behind other great apes, in part because of the prevalence of mitochondrial pseudogenes (“numts”). We determined the comple...
Article
Although nuclear copies of mitochondrial DNA (numts) can originate from any portion of the mitochondrial genome, evidence from humans suggests that more variable parts of the mitochondrial genome, such as the mitochondrial control region (MCR), are under-represented in the nucleus. This apparent deficit might arise from the erosion of sequence iden...
Conference Paper
Nuclear copies of mitochondrial DNA (mtDNA), also known as numts, are widely distributed in the genomes of primates at levels that seem to surpass those in other mammalian orders. Sequencing of the human genome has shown that numts can originate from any portion of the mitochondrial genome but it also uncovered an apparent under-representation of n...
Article
The present study set out to evaluate cross-species amplification of 34 bovid microsatellites in six central African duikers: Cephalophus callipygus, C. monticola, C. silvicultor, C. nigrifrons, C. dorsalis and C. leucogaster. Of these loci, 16 amplified across all species and appeared polymorphic when initially tested in polyacrylamide gel electro...
Article
Full-text available
Nuclear integrations of mitochondrial DNA (numts) are widespread among eukaryotes, although their prevalence differs greatly among taxa. Most knowledge of numt evolution comes from analyses of whole-genome sequences of single species or, more recently, from genomic comparisons across vast phylogenetic distances. Here we employ a comparative approac...
Conference Paper
The mitochondrial control region (MCR) has played an important role as a population genetic marker in many taxa. However, inadvertent amplification of nuclear integrations of mitochondrial DNA (NUMTs) can inflate estimates of mitochondrial diversity and mislead phylogenetic and population genetic analyses. NUMTs are thought to integrate by non-homo...
Article
The present study compares the effect of three storage media (silica, RNAlater®, ethanol) and time to extraction (1 week, 1 month and 3 months) on mitochondrial and nuclear marker amplification success in faecal DNA extracts from a sympatric community of small to medium-sized Central African forest ungulates (genera Cephalophus, Tragelaphus, Hyemos...
Article
The standardized use of mitochondrial cytochrome c oxidase subunit I (COI) gene sequences as DNA barcodes has been widely promoted as a high-throughput method for species identification and discovery. Species delimitation has been based on the following criteria: (1) monophyletic association and less frequently (2) a minimum 10x greater divergence...
Conference Paper
Mitochondrial DNA (mtDNA) has traditionally been the main source of data for population genetics and molecular systematics studies of mammalian populations. However, sequencing of complete eukaryotic genomes has called to attention the abundance and widespread distribution of nuclear copies of mitochondrial DNA (numts) that can potentially confound...
Article
Surname frequency (isonymy) is used as a marker of paternal lineage and is used to characterize human population structure. Principles of isonymy were used to determine the genetic structure, migration rates, ancestry relations and origins of populations. This analysis was applied to two historically related local populations which currently are co...
Article
Full-text available
Introducción. La utilización de la frecuencia de apellidos como marcadores de linajes paternos ha permitido caracterizar poblaciones. Los principios de isonimia se han empleado para determinar el grado de estructuración genética, las tasas de migraciones y las relaciones de ancestría y origen entre poblaciones. Este análisis se aplicó a dos poblaci...
Article
Full-text available
Although it is well established that Hispanics generally have a mixed Native American, African, and European ancestry, the dynamics of admixture at the foundation of Hispanic populations is heterogeneous and poorly documented. Genetic analyses are potentially very informative for probing the early demographic history of these populations. Here we e...
Conference Paper
Diferentes estudios sugieren que ciertas regiones de Antioquia han estado aisladas geográficamente, desde su fundación en la colonia, hasta principios del siglo XX. La información existente sobre MZI, uno de los núcleos principales de poblamiento en Antioquia, es incipiente e incluso anecdótica. A pesar de que se cuenta con variosestudios histórico...
Conference Paper
We recently used Y-chromosome and mtDNA markers to assess the ethnic background of the population of Antioquia in North West Colombia. This population has a history of isolation and since its founding in the 16th-17th centuries has expanded over a thousand times (to a current size of about 3-4 million). A Native American ancestry was detected in ab...
Conference Paper
We are conducting genetic mapping studies in the populations of the Central Valley of Costa Rica (CVCR) and of Antioquia (Colombia). These two populations were established in the 16-17th centuries mostly by the admixture of a small number of Spanish and Native Americans founders. Since their establishment these two populations have remained relativ...
Article
Full-text available
Objectives: To characterize a sample of families and trios from an isolated colombian population, in order to map loci involved in vulnerability to Bipolar Mood Disorder type-I (BD-I). Methods: Trios and pedigrees using FIGS-DIGS interviews to family members and possibly affected were collected. Power to detect linkage (PDL) was estimated by simula...
Article
To evaluate sex-specific differences in gene flow between Native American populations from South America and between those populations and recent immigrants to the New World, we examined the genetic diversity at uni- and biparental genetic markers of five Native American populations from Colombia and in published surveys from native South Americans...
Article
Historical and genetic evidences suggest that the recently founded population of Antioquia (Colombia) is potentially useful for the genetic mapping of complex traits. This population was established in the 16th-17th centuries through the admixture of Amerinds, Europeans, and Africans and grew in relative isolation until the late 19th century. To ex...
Article
The short variant of a functional length polymorphism in the promoter region of the serotonin transporter has been associated with several behavioural and psychiatric traits, including bipolar mood disorder. The same short allele has also been implicated as a modifier of the bipolar phenotype. Here we evaluate the etiologic/modifier role of this po...
Conference Paper
In order to examine mtDNA diversity in Colombian Amerinds we performed a combined RFLP and D-loop sequence analysis of 73 individuals from 17 Native populations. In each sample we collected sequence data for D-loop hypervariable segments 1 and 2 and typed 5 RFLPs (the 4 sites diagnostic of lineages A to D and the HaeIII site at position 16,517). Th...
Conference Paper
We have examined the frequency of a functional length polymorphism in the promoter region of the serotonin transporter (5-HTTLPR) in a case/control sample for bipolar mood disorder type 1. Patients (N=98) and controls (N=104) were collected from the isolated population of Antioquia, Colombia. Cases were evaluated using the Diagnostic Interview for...
Conference Paper
To evaluate the proposed higher migration rate of females throughout human evolution (Nat. Genet. 20: 270, 1998)we examined the level of within and between population diversity in 5 Colombian Native American populations. Markers examined included: mtDNA (5 RFLPs), autosomal (11 microsatellites, 5 beta globin gene cluster RFLPs and the MHC DQA1 locu...
Conference Paper
We have examined the frequency of a functional length polymorphism in the promoter region of the serotonin transporter (5-HTTLPR) in a case/control sample for bipolar mood disorder type 1. Patients (N=98) and controls (N= 104) were collected from the isolated population of Antioquia, Colombia. Cases were evaluated using the Diagnostic Interview for...

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