Peruvian Alpaca Research Articles

Alterations in the gut microbial composition and diversity associated with diarrhea in neonatal Peruvian alpacas

Diarrhea in alpacas is a clinically significant condition and the primary cause of morbidity in neonatal Peruvian alpacas. This study aimed to correlate early diarrhea in crias of alpaca with changes in the microbiota community. A total of 19 alpacas (aged 1–2 months) were collected, including nine with a health condition and ten healthy ones. Fecal samples were obtained under sterile conditions and their DNA was extracted. Sequencing of the V3-V4 region of the 16S rRNA gene was conducted in the Illumina platform, followed by bioinformatics analysis. Reduced microbial diversity was evident in alpacas afflicted with diarrhea, delineating contrasting microbial compositions in comparison to their healthy counterparts. The study characterized the predominant bacterial classes and phyla within the gut microbiota, with Firmicutes, Verrucomicrobiota, and Bacteroidota collectively constituting approximately 80% of the total bacterial population. Substantial disparities in these microbial compositions were observed between the two groups, a variance that appeared to be influenced by both age and the health status of the alpacas. The bacterial class Verrucomicrobiae exhibited a significant presence within the group of alpacas suffering from illness. Furthermore, specific pathogenic species such as Clostridium spiroforme, Blautia, and Bacteroides fragilis were detected in significantly higher proportions among the afflicted alpacas. The functional diversity across the two groups was also found to be markedly different, a distinction that is graphically represented in a heat map illustrating the fifty principal differential KEGGs. This study provides valuable insights into the role of gut microbiota in alpaca health and may have implications for veterinary care and management.

Parasitism-Induced Changes in Microbial Eukaryotes of Peruvian Alpaca Gastrointestinal Tract.

Alpacas, important genetic resources in the Andean region of Peru, are vulnerable to diarrhea caused by pathogenic parasites such as Eimeria lamae and Giardia sp., which can be fatal, especially in neonates, due to their physiological immaturity and limited adaptability. The study investigated the diversity and abundance of intestinal fungi and protists in alpacas infected with Eimeria lamae and Giardia sp. compared to healthy alpacas. A total of 19 alpacas, aged between one and two months, were included. They were divided into two groups, one with pathological conditions (nine) and the other healthy (ten). Parasitological analyses for the detection of parasites and subsequent molecular analysis were performed on the collected fecal samples. The results revealed a greater diversity and abundance of protists in infected alpacas in comparison with healthy alpacas, while the fungal composition did not show significant changes. Therefore, parasitic infections affect the protist component of the alpaca gut microbiota. Also, it was observed that Blastocystis was identified in all healthy alpacas, serving as a possible marker of the health of the intestinal microbiota; in addition, Prussia and Pichia are beneficial fungi that help control diseases. This groundbreaking study in neonatal alpacas is the first to explore potential changes in the intestinal microbiota during an infectious state, underscoring the importance of further research to comprehend its effects on alpaca health and immune responses.

Co-Circulation of Multiple Coronavirus Genera and Subgenera during an Epizootic of Lethal Respiratory Disease in Newborn Alpacas (Vicugna pacos) in Peru: First Report of Bat-like Coronaviruses in Alpacas.

Coronaviruses (CoVs) infect a wide range of hosts, including humans, domestic animals, and wildlife, typically causing mild-to-severe respiratory or enteric disease. The main objective of this study was to identify CoV genera and subgenera detected in Peruvian alpacas. Lung lavage specimens were collected from 32 animals aged 1 to 6 weeks. CoVs were identified by using RT-PCR to amplify a pan-CoV conserved region of the RNA-dependent RNA polymerase-encoding gene. A nested PCR was performed to identify β-CoVs. Then, β-CoV-positive samples were subjected to RT-PCR using specific primers to identify the Embecovirus subgenus. Out of 32 analyzed samples, 30 (93.8%) tested positive for at least one CoV genus. β-, α-, or unclassified CoVs were identified in 24 (80%), 1 (3.3%), and 1 (3.3%) of the positive samples, respectively. A CoV genus could not be identified in two (6.7%) samples. A mixture of different CoV genera was detected in two (6.7%) samples: one was co-infected with β- and α-CoVs, and the other contained a β- and an unclassified CoV. A sequence analysis of the amplicons generated by the PCR identified 17 β-CoV strains belonging to the subgenus Embecovirus and two α-CoV strains belonging to Decacovirus. A phylogenetic analysis of two strains revealed a relationship with an unclassified Megaderma BatCoV strain. A subgenus could not be identified in nine β-CoV samples. Our data show a high prevalence and a high genetic diversity of CoV genera and subgenera that infect alpacas, in which the β-CoV subgenus Embecovirus predominated. Our data also suggest a new role for bats in the dissemination and transmission of uncommon CoVs to alpacas raised in rural Peru.

Cradle-to-grave environmental analysis of an alpaca fiber sweater produced in Peru

Animal fibers are an important raw material for the fashion industry but have recently been discussed due to the environmental impacts related to their production. In order to provide scientific information for decision-making in the Peruvian alpaca sector a cradle to grave carbon footprint of one (01) wear of a 100 % alpaca fiber sweater has been conducted. For the modeling of the fiber procurement stage primary data regarding livestock management and annual production parameters were obtained from interviews with 42 Peruvian alpaca herders from the main producing regions in South and Central Peru. Data for the processing stages (spinning and dyeing, knitting and weaving) were collected by means of interviews and questionnaires from three alpaca fashion companies in Arequipa and Lima. The distribution, use, and end-of-life stages were modeled with secondary data. The resulting carbon footprint of one wear of the alpaca fiber sweater is 0.449 kg CO2 equivalents (CO2e). Most emissions occur during the lifecycle stages of fiber production and distribution (70 % and 14 % of CO2e emissions, respectively). Methane emissions from enteric fermentation account for 87 % of the impact within the fiber procurement stage. The environmental impacts during the distribution stage were dominated by retailing and road transport in the destination countries and export by air and sea (53.1 % and 46.4 % of carbon emissions in this stage, respectively). Other life cycle stages were found to be less relevant emission sources. The study concluded that the main strategies for impact mitigation should focus on improving the efficiency of the fiber procurement systems. Furthermore, several knowledge gaps have been identified and should be addressed by future research regarding methane emissions associated with the main co-products of the livestock systems, ecosystem services in the Andes and especially Andean wetlands and potential mitigation strategies of greenhouse gases related to different pasture management options.

Fiber density and hair ducts in the skin of alpacas: Quantification, heritability, and genetic correlations

Alpaca fibers are used to create luxury garments, and simultaneous selection for optimizing fiber density and the density of hair ducts in the skin of alpacas could result in a more profitable product for breeders. The objective of this study was i) to quantify fiber density (FibDen), density of hair ducts (DenDuc), and the relationship between No. of fibers/No. of ducts (Fib/Duc) by age and sex, and ii) to estimate heritability and genetic correlation between FibDen and DenDuc. This study was conducted in the CEDAT (Centro de Desarrollo Alpaquero de Toccra) in the Department of Arequipa, Peru. A total of 1,813 alpacas of different sex and age with pedigree information were analyzed from years 2004–2018. The quantification of FibDen, DenDuc and Fib/Duc was estimated using Fiber-Den equipment in an area of 1 mm2 in the middle rib region of the animal. The average FibDen, DenDuc and Fib/Duc was 24.75 ± 5.48, 7.83 ± 2.17 and 3.25 ± 0.55, respectively. The heritability for FibDen, DenDuc, and Fib/Duc was 0.48 ± 0.04, 0.53 ± 0.04, and 0.20 ± 0.03, respectively. The genetic correlation between FibDen and DenDuc was 0.87 ± 0.06. The estimated heritabilities of these traits in Peruvian alpaca population are moderate to high and indicate that these characteristics could be used as selection criteria in breeding programs.

The occurrence of Sarcocystis spp. in the myocardium of alpacas (Vicugna pacos) with associated risk factors in the Peruvian Andes.

Sarcocystis masoni n. sp. (known as "S. lamacanis") infects alpacas affecting their productivity and can cause a food poisoning syndrome in humans by consuming contaminated, undercooked cardiac muscle. There are few studies estimating the prevalence of this parasite in alpacas, although this information is crucial for the control and prevention of sarcocystosis. This study aimed to determine the frequency and density of Sarcocystis masoni n. sp. in the heart of alpacas in Huancavelica, a province of the Andean region of Peru. Heart samples were taken for histopathology from 104 alpacas slaughtered at the municipal slaughterhouse of Huancavelica, the official abattoir in the Huancavelica district. No macroscopic sarcocysts were observed. All alpacas (100%) had microscopic sarcocysts of Sarcocystis masoni n. sp., with no inflammatory reactions. The alpacas showed an average sarcocyst density of 60.8 ± 23.3/mm2. Sarcocysts density was significantly higher (p < 0.05) as the age of the animals increased. In addition, sarcocysts density was significantly higher (p < 0.05) in male animals aged 4 and 5years compared to females of the same age. These results confirmed that heart sarcocystosis is highly endemic in Peruvian alpacas. Therefore, it is recommended that alpaca hearts be well-cooked at the time of consumption. The present study showed current data and contributes to the knowledge of this parasitosis. Studies of this nature are necessary because they are the basis for developing animal health programs.

Fiber Quality and Staple Length In Black and Brown Peruvian Alpacas

Fiber Quality and Staple Length In Black and Brown Peruvian Alpacas

Genetic diversity and validation of a microsatellite panel for parentage testing for alpacas (Vicugna pacos) on three Peruvian farms

• There is a high genetic diversity within and among the three alpaca farms. • The inbreeding levels of the three alpaca farms are moderate. • A panel of 15 microsatellite markers have been validated for parentage control in Peruvian alpaca farms. The alpaca is of greatest economic importance in the Peruvian High Andes. This study aimed to determine the genetic diversity of three Peruvian alpaca farms, as well as, to validate a microsatellite markers panel for paternity testing. In this study, 247 samples of Huacaya alpacas were taken from three different localities (Sanjo, San Pedro de Raco and Cachipampa) from Pasco Region in Peru. DNA was obtained from hair follicles and genotyped for 15 microsatellites markers in multiplex electrophoresis runs. A total of 225 alleles were detected across the 15 loci investigated. The polymorphism information content considering all loci was 0.82, which indicated that the microsatellite panel was very polymorphic and highly informative. The estimated diversity parameter showed that farms have high levels of genetic diversity (H E = 0.826), and revealed the existence of genetic differentiation among the farms ( F ST = 2.8 %). The highest inbreeding coefficient was in the Sanjo farm ( F IS = 0.303). The results of the parentage testing indicated that all loci showed values greater than 70 % probability of discrimination. However, the highest values found were 94 % (YWLL08) and 90 % (YWLL36). The average of the probability of exclusion obtained was 0.999994 if the genotype for one alleged parents is known, and 0.99999 if the genotypes for both alleged parents are known. The results obtained show that there is a high genetic diversity and validate the panel of microsatellite markers, that would help to improve the identification system and genealogical data collection.

Calving date and its variability as a potential trait in the breeding objective to account for reproductive seasonality in alpacas.

The low fertility and offspring survival indicators in alpacas can be partially due to their particularity seasonal reproduction that reduces the opportunities of the females to become pregnant within a season, with the survival of the offspring concerned by the availability of food and exposure to diseases that depends on the calving date. Optimizing the date of delivery and reducing its variability are shown as eligible criteria that could be used as selection criteria within the genetic improvement programmes in alpacas, the calving date being a much more appropriate trait to measure and optimize fertility unlike of age at first calving and the calving interval, this due to the reproductive seasonality in camelids. For this study, 6,533 birth date records were taken between 2001 and 2018 of Peruvian alpacas, to estimate the genetic parameters. Models assuming heterogeneity in the residuals were fitted besides classical homogeneous models to address, not only the possibility of forwarding or delaying the calving date, but also the trend to have parturitions in similar dates. The heritability and repeatability ranged from 0.07 to 0.20 for a homogeneity model and from 0.08 to 0.23 for a heterogeneity model, and suggest the possibility of advancing or delaying the calving date. It should be taken into account that the gestation length of camelids makes it difficult to adapt many reproductive traits, and trying to centre the calving date could delay it. It was concluded the feasibility to genetically select the calving date, also in the production of camels and dromedaries, which have the same reproductive characteristics as alpacas. This selection can be combined with other traits. The heterogeneity model was shown to provide a better fit.

Standardization and segmented governance in the Peruvian alpaca fibre value chain

ABSTRACT This article builds on and extends Global Value Chain theory through an examination of governance dynamics in the Peruvian alpaca fibre chain in the context of state-sponsored standardization during the period 1997–2013. We propose a Segmented Governance Model (SGM) showing a fragmented-concentrated supply–demand structure to describe and explain how micro and meso-scale interactions configure chain governance. The SGM allows a move beyond the traditional upstream–downstream analysis to accommodate the horizontal mobility of suppliers and buyers at pre-export segments of the chain. Findings show how mixed governance modes co-exist within and between segments and explain why convergence towards a coherent overall market governance does not occur as standardization unfolds. We suggest further studies applying the SGM to better explain national governance dynamics in commodity chains towards inclusive and sustainable engagement in global markets.

Heritability of individual fiber medullation in Peruvian alpacas

The aim of this research was to estimate for the first time the heritability and genetic relationship between medullation and fiber diameter in each fiber by itself. A total of 21,600 fibers from 36 samples from white fleeces, 600 fibers each sample, from males between 0.4 and 10.4 years old from Pacomarca experimental farm (Inca Group, Puno, Peru) were tested using projection microscope (PM). The individual fiber diameter (FD) and the category of medullation (CM) was recorded in each fiber. CM of each fiber was assigned to one of the five categories established in the literature. The percentage of medullated fiber ranged from 12.33% to 91.67% per sample. The correlation between OFDA 100 ® medullation percentage and PM measurements was 0.79. The statistical model used for estimation of genetic parameters for CM and FD included the age as a linear and quadratic covariate as systematic effect, and the additive genetic and the permanent environmental as random effects. The pedigree that served to predict genetic values was very robust and strong, allowing obtaining reliable and significant parameters. Univariate and bivariate models were used to estimate heritability for CM and DF, as well as its genetic correlation. Different models considering CM as continuous or categorical trait were tested. The highest heritability estimate for CM was 0.36 ± 0.13 obtained using a bivariate continuous model. Using the same model, the heritability estimate for FD was 0.35 ± 0.15 and the genetic correlation between CM and FD was 0.93 ± 0.12. These results implied that selection against medullated fiber is feasible while at the same time reducing the FD in alpacas. Since measurement of CM per fiber sample was time-consuming, PM measured by OFDA 100 ® would be useful as an indicator to reduce the number of medullated fiber in alpaca fleeces.

Cuticle and cortical cell morphology of alpaca and other rare animal fibres

The null hypothesis of the experiments reported is that the cuticle and cortical morphology of rare animal fibres are similar. The investigation also examined if the productivity and age of alpacas were associated with cuticle morphology and if seasonal nutritional conditions were related to cuticle scale frequency. Cuticle and cortical cell dimensions and ellipticity of the fibre cross section were investigated in 32 samples of cashmere, alpaca, mohair, bison, qiviut and vicuña from various origins. In addition, 24 Peruvian alpaca samples from animals ages 2–6 years and of varying fleece productivity were examined. Cuticle scale frequency, cuticle thickness and cortical cell dimensions (length, diameter, volume and ratio of length to diameter) and ellipticity differed between fibres and cuticle scale frequency also varied with mean fibre diameter. For Peruvian alpaca fleece samples, cuticle scale frequency varied with the age of alpaca and fleece productivity. Fibre ellipticity increased with increasing fibre diameter. Cortical cell length was strongly related to cortical cell diameter. The cuticle scale morphology of these rare animal fibres did not have fixed dimensions. Using cuticle scale morphology as a diagnostic tool to positively identify rare natural animal fibres needs to standardize measurements for fibre diameter but will still be affected by differences in animal productivity.

Identification of two novel Rotavirus A genotypes, G35 and P[50], from Peruvian alpaca faeces

Rotavirus A (RVA) Alp11B was detected from a neonatal Peruvian alpaca presenting with diarrhea, and the Alp11B VP7, VP4, VP6, NSP4, and NSP5 genes were sequenced. The partial genotype constellation of this strain, RVA/Alpaca-wt/PER/Alp11B/2010, was determined to be G35-P[50]-I13-E16-H6.

Effect of the gestation and lactation on fiber diameter and its variability in Peruvian alpacas

A study was conducted to know the influence of the pregnancy and lactation states on the fiber performance in alpacas at Pacomarca experimental farm in the Peruvian highlands. Records obtained from the regular performance recording software of the farm were used, gathering 8648 records of 1541 females and 366 males of Huacaya ecotype, and 2410 records of 374 females and 132 males of Suri ecotype, registered from 2001 to 2015 and belonging to animals of three or more years. A mixed linear model for fiber diameter, standard deviation and coefficient of variation fitted the physiological state with five categories (milking, pregnant, milking and pregnant, open females and males) as an effect jointly with others such as year of recording, age from 3 to 9 or more years old and coat color. Huacaya and Suri ecotypes were independently analyzed. All the effects included in the model appeared as highly significant, being the paired differences less significant in Suri because of the lower number of records. Lactation physiological state appeared as an important effect affecting fiber performance, explaining a difference of 1.2 and 1.0µm of differences in respectively Huacaya and Suri pregnant females, while pregnancy appeared with a much less relevant influence. Other factors greatly influenced the fiber diameter. Thus, age had a very important effect increasing 3.71µm from 3 to 9 years of age in huacaya and 4.52µm en Suri. A difference of 3.09µm in huacaya and 5.93µm in Suri was found between dark and white coat colored alpacas. These results recommend modifying the genetic evaluation model by fitting the physiological state of females to increase the accuracy of the breeding values used to select animals in the breeding scheme of the farm.

Draft Genome Sequence of a Virulent Strain of Pasteurella Multocida Isolated From Alpaca.

Pasteurella multocida is one of the most frequently isolated bacteria in acute pneumonia cases, being responsible for high mortality rates in Peruvian young alpacas, with consequent social and economic costs. Here we report the genome sequence of P. multocida strain UNMSM, isolated from the lung of an alpaca diagnosed with pneumonia, in Peru. The genome consists of 2,439,814 base pairs assembled into 82 contigs and 2,252 protein encoding genes, revealing the presence of known virulence-associated genes (ompH, ompA, tonB, tbpA, nanA, nanB, nanH, sodA, sodC, plpB and toxA). Further analysis could provide insights about bacterial pathogenesis and control strategies of this disease in Peruvian alpacas.

Whole-genome characterization of a Peruvian alpaca rotavirus isolate expressing a novel VP4 genotype

The SA44 isolate of Rotavirus A (RVA) was identified from a neonatal Peruvian alpaca presenting with diarrhea, and the full-length genome sequence of the isolate (designated RVA/Alpaca-tc/PER/SA44/2014/G3P[40]) was determined. Phylogenetic analyses showed that the isolate possessed the genotype constellation G3-P[40]-I8-R3-C3-M3-A9-N3-T3-E3-H6, which differs considerably from those of RVA strains isolated from other species of the order Artiodactyla. Overall, the genetic constellation of the SA44 strain was quite similar to those of RVA strains isolated from a bat in Asia (MSLH14 and MYAS33). Nonetheless, phylogenetic analyses of each genome segment identified a distinct combination of genes. Several sequences were closely related to corresponding gene sequences in RVA strains from other species, including human (VP1, VP2, NSP1, and NSP2), simian (VP3 and NSP5), bat (VP6 and NSP4), and equine (NSP3). The VP7 gene sequence was closely related to RVA strains from a Peruvian alpaca (K’ayra/3368-10; 99.0% nucleotide and 99.7% amino acid identity) and from humans (RCH272; 95% nucleotide and 99.0% amino acid identity). The nucleotide sequence of the VP4 gene was distantly related to other VP4 sequences and was designated as the reference strain for the new P[40] genotype. This unique genetic makeup suggests that the SA44 strain emerged from multiple reassortment events between bat-, equine-, and human-like RVA strains.

Outbreak of diarrhea among preweaning alpacas (Vicugna pacos) in the southern Peruvian highland.

Infections, particularly diarrheal infections, are a major cause of neonatal death in South American camelids. The aim of this study was to identify the pathogens that could have caused the recent diarrhea outbreak among the alpacas in Silli, Cusco, located in the southern Peruvian highland. Spleen, kidney, and intestine tissue along with fecal and intestinal lavage samples were obtained from 50 one- to five-week-old alpacas and analyzed for the presence of parasites, bacteria, and viruses. Laboratory testing of the 50 crias included in this study revealed that 80% were infected with Eimeria spp., 40% with coronavirus, 34% with E. coli, 32% with rotavirus, 22% with Clostridium spp., and 20% with Cryptosporidium spp. Of these 50 alpaca crias, 20 presented with a single infection (19 positive for Eimeria spp. and 1 positive for rotavirus). Co-infections with up to four pathogens occurred in 60% of the samples. The significance of such infections is not clear, but it is noteworthy that the animals suffering from necrotic and/or hemorrhagic enteritis presented with quadruple infections. It is likely that co-infections increase the severity of the disease. These data show that multiple pathogens circulate among young alpaca crias and could be associated with diarrheal disease in these animals. The findings from this study warrant the provision of subsidies for future assessment of the potential economic impact of these infections on the productivity of the Peruvian alpaca industry.

Betacoronavirus 1 in alpacas (Vicugna pacos) in the High Peruvian Andes

Genetic sequences highly related to Bovine coronavirus (BCoV) were detected in fecal samples from Peruvian 1–3 week old alpaca crias located on six farms in Puno department, some of which shared pastures with cattle. A total of 60 samples were screened for coronavirus using a nested PCR amplification of a fragment of the RNA-dependent RNA polymerase (RdRp) gene. Sequences from 11 positive samples were highly similar to the Kakegawa, Quebec and Mebus BCoV strains (99.5–100.0%) and 99.2% identical to an alpaca Coronavirus (CoV) previously detected in the USA. The detection of genetic sequences related to BCoV from Peruvian alpaca crias suggests possible role of this virus on enteric disorders etiology in the High Andes.

Estimation of genetic parameters for reproductive traits in alpacas

One of the main deficiencies affecting animal breeding programs in Peruvian alpacas is the low reproductive performance leading to low number of animals available to select from, decreasing strongly the selection intensity. Some reproductive traits could be improved by artificial selection, but very few information about genetic parameters exists for these traits in this specie. The aim of this study was to estimate genetic parameters for six reproductive traits in alpacas both in Suri (SU) and Huacaya (HU) ecotypes, as well as their genetic relationship with fiber and morphological traits. Dataset belonging to Pacomarca experimental farm collected between 2000 and 2014 was used. Number of records for age at first service (AFS), age at first calving (AFC), copulation time (CT), pregnancy diagnosis (PD), gestation length (GL), and calving interval (CI) were, respectively, 1704, 854, 19,770, 5874, 4290 and 934. Pedigree consisted of 7742 animals. Regarding reproductive traits, model of analysis included additive and residual random effects for all traits, and also permanent environmental effect for CT, PD, GL and CI traits, with color and year of recording as fixed effects for all the reproductive traits and also age at mating and sex of calf for GL trait. Estimated heritabilities, respectively for HU and SU were 0.19 and 0.09 for AFS, 0.45 and 0.59 for AFC, 0.04 and 0.05 for CT, 0.07 and 0.05 for PD, 0.12 and 0.20 for GL, and 0.14 and 0.09 for CI. Genetic correlations between them ranged from −0.96 to 0.70. No important genetic correlations were found between reproductive traits and fiber or morphological traits in HU. However, some moderate favorable genetic correlations were found between reproductive and either fiber and morphological traits in SU. According to estimated genetic correlations, some reproductive traits might be included as additional selection criteria in HU.

Seroprevalence to pathogenic leptospira in Peruvian alpacas and vicuñas

Micro agglutination testing was used to detect specific antibodies against five pathogenic Leptospiraserovars (icterohaemorrhagiae, pomona, canicola, wolfii and ballum) in 793 alpaca and 195 vicuña serum samples collected in the Huancavelica and Ayacucho Departments of Peru. The study revealed that 89.6% of the alpacas and 77.4% of the vicuñas were positive to one or more serovars. In alpacas, the titers varied from 1:100 to 1:1600 for reactions to icterohaemorrhagiae (43.4%) and pomona (37.8%), whereas among vicuñas titers varied from 1:100 to 1:400 for reactions to the same serovarsicterohaemorrhagiae (69.2%) and pomona (8.2%). The alpacas also had antibodies to canicola (7.8%) and wolfii (0.6%). These results show that these animals had previous exposure to 4 of the 5 serovars tested, and the elevated titers to icterohaemorrhagiae and pomona in alpacas suggest a recent infection event.