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All Journal Buletin Peternakan Jurnal Sain Peternakan Indonesia JITRO (Jurnal Ilmiah dan Teknologi Peternakan Tropis) Jurnal Ilmiah Inovasi Bulletin of Applied Animal Research Jurnal Ilmu Peternakan Terapan Jurnal Agripet Animal Production Biodiversitas Journal of Biological Diversity
Asep Setiaji
Program Studi Peternakan, Fakultas Peternakan Dan Pertanian, Universitas Diponegoro, Semarang, 50275
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Decision Sciences, Operations Research & Management Economics, Econometrics & Finance Education Immunology & microbiology Veterinary Other

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The phenotypic characteristics and morphology of Jabres and Pasundan cattle differences YOYO SURYAKA; SUTOPO SUTOPO; ASEP SETIAJI
Biodiversitas Journal of Biological Diversity Vol. 25 No. 7 (2024)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d250745

Abstract

Abstract. Suryaka Y, Sutopo S, Setiaji A. 2024. The phenotypic characteristics and morphology of Jabres and Pasundan cattle differences. Biodiversitas 25: 3239-3246. Pasundan and Jabres cattle, prominent Indonesian breeds, exhibit unique phenotypic characteristics crucial for sustainable breeding and conservation. This study, aimed at delineating phenotypic differences between Pasundan and Jabres cattle, two prominent Indonesian breeds, is a hope for the country's sustainable breeding and conservation efforts. Data were collected from 131 adult cattle (71 Pasundan, 60 Jabres) from Kuningan and Brebes Districts, spanning July 2022 to June 2023. Morphological and morphometric analyses highlighted key distinctions: Pasundan cattle predominantly feature a solid reddish-brown coat, while Jabres cattle exhibit more diverse colors, including black. Jabres cattle showed significantly greater body length and chest girth than Pasundan cattle. Canonical Discriminant Analysis (CDA) effectively distinguished the breeds, especially in females, with 83.33% accuracy for Pasundan and 79.31% for Jabres. Critical discriminant traits included chest width and rump length. The findings suggest that Pasundan and Jabres cattle possess unique phenotypic traits driven by genetic, environmental, and management factors. These insights are crucial for developing targeted breeding strategies to enhance breed-specific characteristics, laying the groundwork for a promising future for Indonesia's cattle industry.
Phenotypic characteristics of native chickens in Libya based on morphometric and plumage traits HASAN MOFTAH AHMED AHMAD; MUHAMMAD RIZWAN YOUSAF; BILAL AHMED; EDY KURNIANTO; DELA AYU LESTARI; FATMAWATI MUSTOFA; SUTOPO SUTOPO; ASEP SETIAJI
Biodiversitas Journal of Biological Diversity Vol. 26 No. 8 (2025)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d260801

Abstract

Abstract. Ahmad HMA, Yousaf MR, Ahmed B, Kurnianto E, Lestari DA, Mustofa F, Sutopo S, Setiaji A, 2025. Phenotypic characteristics of native chickens in Libya based on morphometric and plumage traits. Biodiversitas 26: 3659-3673. Native Libyan chickens are a widely distributed poultry variety, while undisturbed types often lack distinctive characteristics. This study aimed to analyze phenotypic variations among Indigenous chickens across different regions of Libya using a qualitative approach. This study used a purposive sampling technique. A total of 200 chickens were sampled from Sirte, Abu Hadi, and Abongim. Data analysis using descriptive statistics, boxplot, Shannon Index, Coefficient of Variation (CV), Principal Component Analysis (PCA), ANOVA test and correlation test. The findings revealed that there were differences in the variation of phenotypic characteristics, indicating that genetic factors play a major role in shaping these traits. The most common feather color was black (36.5%). Black with a white side was the most common shank color (45.5%). The most common comb type was the pea comb (54%). Black (45%) and brown-yellow (46.5%) beak colors were most prevalent. Highly significant differences between regions occurred in leg color (p = 0.008) and beak color (p = 0.018), whereas highly significant differences between sexes were for all the traits (p<0.05). Good correlations were also found between beak color and comb shape (r = 0.777), and leg color and feather color (r = 0.776). PCA analysis showed that the maximum variation in phenotypes was explained by feather color (79.16%). Environmental influences and local breeding practices contributed to the distribution. Preservation of native phenotypes has substantial conservation value because it provides resilient traits essential for local and regional agriculture and contributes to genetic diversity. Therefore, to enhance the sustainability, selective breeding programs should prioritize the maintenance and enhancement of the most common and adaptive traits.
Morphometric and phenotypic variation of muscovy ducks (Cairina moschata) in Central Java, Indonesia SUTOPO SUTOPO; MIRNA ICE RAMANDHANI; FERRI KRISTIO SIANTURI; ASEP SETIAJI
Biodiversitas Journal of Biological Diversity Vol. 26 No. 9 (2025)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d260902

Abstract

Abstract. Sutopo, Ramandhani MI, Sianturi FK, Setiaji A. 2025. Morphometric and phenotypic variation of muscovy ducks (Cairina moschata) in Central Java, Indonesia. Biodiversitas 26: 4267-4273. The muscovy duck (Cairina moschata) is an important part of traditional poultry systems in Central Java, Indonesia. However, the genetic and phenotypic diversity among local varieties remains poorly characterized, limiting efforts in sustainable breeding and conservation. This study aimed to characterize the morphometric and phenotypic variability of three local muscovy duck types (Local, Rambon, and Jumbo) through quantitative and qualitative assessments. A total of 96 adult female ducks were sampled, comprising 36 Local (Demak), 30 Rambon (Kendal), and 30 Jumbo (Temanggung). Morphometric traits measured included maxilla length, neck length, chest circumference, and wing length, among others. Qualitative traits examined included plumage color and body conformation (e.g., caruncle, breast, shank, and abdomen). Data were analyzed using descriptive statistics, discriminant analysis, cluster analysis, and canonical discriminant functions. Jumbo ducks exhibited significantly larger body dimensions compared to the Local and Rambon groups, with an average chest circumference of 34.6±1.8 cm and neck length of 20.4±1.2 cm. Jumbo ducks also showed predominantly white plumage (80%) and pink bills, contrasting with the darker and more variable coloration in Local ducks. Discriminant analysis revealed chest circumference, neck length, and femur length as key variables for group differentiation, achieving 86.67% classification accuracy for Jumbo ducks. Cluster and canonical analyses confirmed the morphological divergence, positioning Rambon ducks as an intermediate group. Substantial morphometric and phenotypic diversity exists among muscovy duck populations in Central Java. Jumbo ducks are morphologically distinct and likely subjected to selection for meat traits. These findings emphasize the importance of conserving local duck genetic resources for future breeding and sustainable production strategies.
PCA-based metagenomics reveals functional and taxonomic diversity in Kedu chicken gut microbiota NURULIARIZKI SHINTA PANDUPUSPITASARI; SUGIHARTO SUGIHARTO; IKANIA AGUSETYANINGSIH; DELA AYU LESTARI; FAHEEM AHMED KHAN; ASEP SETIAJI; MUHAMMAD ASIF RAZA
Biodiversitas Journal of Biological Diversity Vol. 26 No. 8 (2025)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d260832

Abstract

Abstract. Pandupuspitasari NS, Sugiharto S, Agusetyaningsih I, Lestari DA, Khan FA, Setiaji A, Raza MA. 2025. PCA-based metagenomics reveals functional and taxonomic diversity in Kedu chicken gut microbiota. Biodiversitas 26: 4035-4041. The Gastrointestinal Tract (GIT) microbiota plays a central role in poultry health, productivity, and resilience, influencing digestion, nutrient absorption, immune development, and disease resistance. This study provides the first multi-database Principal Component Analysis (PCA)-based metagenomic characterization of the gut microbiota in Kedu chickens (Gallus gallus (Linnaeus, 1758)), an indigenous Indonesian breed. Digesta from five GIT segments (crop, gizzard, jejunum, colon, and cecum) of 21 traditionally reared Kedu chickens were sequenced on the Illumina NovaSeq X Plus platform, yielding 1,523,876 unigenes. Functional annotation against Non-Redundant Protein Database (NR), Clusters of Orthologous Groups (COG), Kyoto Encyclopedia of Genes and Genomes (KEGG), Carbohydrate-Active enZYmes Database (CAZy), Antibiotic Resistance Genes Database (ARDB), Comprehensive Antibiotic Resistance Database (CARD), and Virulence Factor Database (VFDB) revealed enrichment of genes involved in metabolism (38.2%), cellular processes (15.7%), environmental information processing (12.6%), and genetic information processing (11.0%). PCA separated GIT segments by functional specialization: The jejunum clustered distinctly (PC1 variance = 26.48% for NR, 30.04% for COG, 67.16% for KEGG) due to nutrient absorption-related functions, while the cecum exhibited the highest diversity and carbohydrate-active enzyme profiles (PC1 = 24.98% for CAZy). ARDB/CARD analysis showed that distal GIT segments (colon, cecum) contained higher densities of antimicrobial resistance genes, and VFDB revealed elevated virulence factor abundance in ileum and cecum. These findings highlight segment-specific microbiota roles, supporting the development of targeted probiotics and feed strategies, and contribute to conserving the functional biodiversity of Kedu chickens in sustainable production systems.
Co-Authors Adli, Danung Nur Agung Purnomoadi Agustine, Ananda Dwi Ahmad, Hasan Moftah Ahmed Ahmed, Bilal Akramullah, Muh Andara, Dhita Indah BILAL AHMED Binti Ma’rifah DELA AYU LESTARI DELA AYU LESTARI Dela Ayu Lestari Dela Ayu Lestari Dela Ayu Lestari, Dela Ayu EDY KURNIANTO Edy Kurnianto Edy Kurnianto Edy Kurnianto Enny Tantini Setiatin Faheem Ahmed Khan FATMAWATI MUSTOFA FERRI KRISTIO SIANTURI HASAN MOFTAH AHMED AHMAD I. Agusetyaningsih Kamalludin, Mamat Hamidi Kamila, Firda Tasya Latifa, Alfa Putri Lilik Krismiyanto MIRNA ICE RAMANDHANI MUHAMMAD ASIF RAZA MUHAMMAD RIZWAN YOUSAF Mustofa, Fatmawati Nabilah, Zata Nur Wakhid Salamudin Nurfaizin NURULIARIZKI SHINTA PANDUPUSPITASARI Philco, Syaddad Verahry Rini Hastarina Suharmadji S. Sugiharto Sholikin, Muhamad Misbakhul SUGIHARTO SUGIHARTO SUTOPO SUTOPO SUTOPO SUTOPO SUTOPO SUTOPO Sutopo Sutopo Sutopo Sutopo Sutopo Sutopo Sutopo Sutopo Yousaf, Muhammad Rizwan YOYO SURYAKA