Background: The Tawahka ethnic group, with approximately 2690 individuals in northeastern Honduras, represents one of the country’s smallest indigenous communities. No genetic studies have been published on this population, and population-specific databases are essential for forensic applications. Methods: Allele frequencies for 23 autosomal short tandem repeats (STRs) loci were analyzed in 100 unrelated Tawahka individuals (61 females, 39 males) from the municipality of Wampusirpi. Deoxyribonucleic acid (DNA) was extracted from blood on Fast Technology for Analysis of nucleic acids (FTA) cards and amplified using the PowerPlex Fusion 6C System. Statistical parameters were calculated using Genepop v4.2 and Arlequin v5.3.2.2. Results: All loci showed substantial polymorphism with no Hardy–Weinberg equilibrium deviations after Bonferroni correction (α = 0.0022). Expected heterozygosity ranged from 0.4968 to 0.8812. Combined power of discrimination was 99.9999% and combined chance of exclusion was 99.99%. Conclusions: This first genetic characterization of the Tawahka population provides essential reference data for forensic identification, paternity testing, and population genetics studies. The dataset contributes to understanding indigenous Central American genetic diversity and ensures accurate forensic analyses for individuals of Tawahka ancestry following Combined DNA Index System (CODIS) and European Standard Set (ESS) standards.

Background: The Garifunas are a distinctive Afro-indigenous community of Honduras, originating from the historical admixture of Island Carib, Arawak, and West African peoples in the seventeenth-century Caribbean. With an estimated 43,111 individuals residing primarily along the northern Atlantic coast. Their dual ancestral composition yields a genetic profile that differs meaningfully from those of other Honduran reference populations, consistent with pairwise FST comparisons with previously published Lenca and Tawahka datasets generated on the identical platform; yet no population-specific short tandem repeat (STR) reference dataset had previously been established. Methods: We genotyped 23 autosomal STR loci using the PowerPlex Fusion 6C System (Promega Corporation) in 100 unrelated Garifuna individuals (70 females, 30 males) sampled from three coastal settlements in the department of Atlántida: Triunfo de la Cruz, Ensenada, and Corozal. DNA was extracted from blood collected on FTA cards, and statistical parameters were computed using Genepop v4.2 and Arlequin v5.3.2.2. Results: A total of 217 distinct alleles were identified, with 5 to 19 alleles per locus (mean 9.43 ± 3.54). Expected heterozygosity (He) ranged from 0.6392 (D13S317) to 0.9010 (SE33), with a population mean of 0.7893. No locus deviated from Hardy–Weinberg equilibrium after Bonferroni correction (α = 0.0022). The combined random match probability was approximately 1.9 × 10⁻²⁶, and the combined chance of exclusion reached 99.99999993%. Conclusions: This study provides the first Honduran Garifuna population-specific autosomal STR reference database for precise forensic likelihood ratio estimates, kinship assessments, and population genetic studies. The Garifuna’s high diversity—consistent with their West African and Amerindian ancestry—indicates the risk of systematic bias when non-specific databases are used.

Background: The Pech ethnic group, comprising approximately 6024 individuals in northeastern Honduras, represents one of the country’s smallest indigenous communities with a rich cultural heritage extending to pre-Columbian times. Despite their historical significance, no population genetic studies have been conducted on this group, and population-specific databases are essential for accurate forensic applications. Methods: Allele frequencies for 23 autosomal short tandem repeat (STR) loci were determined in 100 unrelated Pech individuals (58 females, 42 males) from communities in the departments of Olancho, Colón, and Gracias a Dios. DNA was extracted from blood samples collected on FTA cards and amplified using the PowerPlex Fusion 6C System. Statistical parameters were calculated using Genepop v4.2 and Arlequin v5.3.2.2. Results: All loci exhibited substantial polymorphism. No statistically significant deviations from Hardy–Weinberg equilibrium were detected after Bonferroni correction (α = 0.0022). Expected heterozygosity ranged from 0.4033 (TH01) to 0.8563 (FGA). The combined power of discrimination exceeded 99.9999%, and the combined chance of exclusion was 99.9999%. Conclusions: This study presents the first genetic characterization of the Pech population, providing essential reference data for forensic identification, paternity testing, and population genetics research. The dataset fills a critical gap in the Honduran forensic genetic infrastructure and contributes to understanding indigenous Central American genetic diversity, enabling accurate forensic analyses for individuals of Pech ancestry in compliance with CODIS and ESS standards.

Background: The Maya Chortí are a Mesoamerican Indigenous group of approximately 33,256 individuals in Copán and Ocotepeque, western Honduras, historically, linguistically, and culturally linked to the Classic Maya tradition of Copán. No population-specific autosomal short tandem repeat (STR) reference dataset had previously been available, requiring forensic calculations to use non-representative databases. Methods: Allele frequencies for 23 autosomal STR loci were estimated in 100 unrelated Maya Chortí individuals from Copán and Ocotepeque. DNA from blood on FTA cards was amplified with the PowerPlex Fusion 6C System. Hardy–Weinberg equilibrium (HWE), pairwise linkage disequilibrium (LD), diversity indices, forensic parameters, inter-population FST, and random match probabilities with and without NRC-II θ-correction (θ = 0.01 and 0.03) were calculated using Genepop, Arlequin, and STRAF. Results: A total of 212 alleles were detected. Expected heterozygosity was high across the panel. After Bonferroni correction, no locus departed from HWE, and no locus pair showed significant LD. The combined random match probability was 1.17 × 10⁻²³, very low, and remained highly discriminating under NRC-II θ-correction; the combined chance of exclusion exceeded 99.99%. Conclusions: This study provides the first autosomal STR reference database for the Maya Chortí of Honduras, enabling population-specific likelihood ratio estimation in forensic identification, paternity testing, and kinship analysis, while expanding the genetic characterization of Mesoamerican Indigenous populations under CODIS/ESS standards.

Background/Objectives: The Black Caribbean population of Honduras, also referred to locally as Negro Inglés, constitutes one of the country’s nine recognized indigenous and Afro-descendant peoples. Predominantly settled in the Bay Islands and sections of the Caribbean coast, this community traces its ancestry predominantly to West Africa and has remained culturally and linguistically distinct for more than three centuries. Despite its demographic and historical relevance, no population-specific short tandem repeat (STR) database has been established for this group. Methods: Allele frequencies for 23 autosomal STR loci were characterized in 100 unrelated Black Caribbean individuals from the department of Islas de la Bahía. DNA was extracted from blood on FTA cards and amplified with the PowerPlex Fusion 6C System (Promega Corporation). Statistical parameters were computed using Genepop v4.2, Arlequin v3.5 and GDA v1.0. Results: A total of 241 distinct alleles were detected across all 23 loci (mean 10.48 ± 3.85 alleles/locus). Expected heterozygosity ranged from 0.6541 (D13S317) to 0.9350 (SE33), with a mean of 0.8150 ± 0.0664—values consistent with a population of predominantly West African origin. No locus exhibited a significant departure from Hardy–Weinberg equilibrium after Bonferroni correction (α = 0.0022). The combined power of discrimination exceeded 99.9999% and the combined chance of exclusion surpassed 99.9999%. Conclusions: This first genetic characterization of the Honduran Black Caribbean population delivers an essential, population-specific reference dataset for forensic casework, paternity testing, and population genetics research. The data also deepen the understanding of Afro-descendant genetic diversity in Central America and constitute a critical step towards equitable forensic genetic services for all Honduran ethnic communities.