Department of Aquaculture, Faculty of Agriculture, Universiti Putra Malaysia, Serdang, Selangor, Malaysia.
Royal Malaysian Customs Department, Presint 2, Putrajaya, Malaysia.
PeerJ. 2022 Mar 29;10:e12970. doi: 10.7717/peerj.12970. eCollection 2022.
Southern River Terrapin, , is a freshwater turtle listed as critically endangered on the IUCN Red List since 2000. Many studies suggest that faecal DNA metabarcoding can shield light on the host-associated microbial communities that play important roles in host health. Thus, this study aimed to characterise and compare the faecal bacterial community between captive and wild using metabarcoding approaches. A total of seven faeces samples were collected from captive ( = 5) and wild ( = 2) adult aseptically, crossing the East and West coast of peninsular Malaysia. The DNA was extracted from the faeces samples, and the 16S rRNA gene (V3-V4 region) was amplified using polymerase chain reaction (PCR). The amplicon was further analysed using SILVA and DADA2 pipelines. In total, 297 bacterial communities taxonomic profile (phylum to genus) were determined. Three phyla were found in high abundance in all faeces samples, namely Firmicutes (38.69%), Bacteroidetes (24.52%), and Fusobacteria (6.95%). Proteobacteria were detected in all faeces samples (39.63%), except the wild sample, KBW3. Under genus level, was found as the most abundant genus (67.79%), followed by (24.56%) and (21.78%). The uncultured genus had the highest abundance (88.51%) even though not detected in the BK31 and KBW2 samples. The potential probiotic genera (75.00%) were discovered to be more dominant in faeces samples. Results demonstrated that the captive faeces samples have a greater bacterial variety and richness than wild faeces samples. This study has established a starting point for future investigation of the gut microbiota of .
马来鳖，，自 2000 年以来被 IUCN 红色名录列为极危物种。许多研究表明，粪便 DNA metabarcoding 可以揭示与宿主相关的微生物群落，这些微生物群落对宿主健康起着重要作用。因此，本研究旨在通过 metabarcoding 方法来描述和比较圈养和野生马来鳖的粪便细菌群落。无菌采集 7 个来自圈养（n=5）和野生（n=2）成年马来鳖的粪便样本，横跨马来西亚半岛的东西海岸。从粪便样本中提取 DNA，使用聚合酶链反应（PCR）扩增 16S rRNA 基因（V3-V4 区）。扩增子进一步使用 SILVA 和 DADA2 进行分析。总共确定了 297 个细菌分类群（门到属）的特征。在所有粪便样本中都发现了三个高丰度的门，分别是厚壁菌门（38.69%）、拟杆菌门（24.52%）和梭杆菌门（6.95%）。除了野生样本 KBW3 外，所有粪便样本中都检测到变形菌门（39.63%）。在属水平上，发现是最丰富的属（67.79%），其次是（24.56%）和（21.78%）。未培养属的丰度最高（88.51%），尽管在 BK31 和 KBW2 样本中未检测到。潜在的益生菌属（75.00%）在圈养的粪便样本中更为优势。结果表明，圈养的马来鳖粪便样本的细菌多样性和丰富度大于野生的。本研究为进一步研究马来鳖的肠道微生物群奠定了基础。
