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      Interspecific variation in the diet of Symphalangussyndactylus and Macacanemestrina at Genting Highlands, Pahang, Peninsular Malaysia

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          Abstract

          Primate communities in the Genting Highlands consist of a single species of Hylobatidae and four species of Cercopithecidae , which are known to exhibit social interaction behaviour. Thus, a study on the diets of Symphalangus syndactylus (siamang; family Hylobatidae ) and Macaca nemestrina (pig-tailed macaque; family Cercopithecidae ) was carried out at Genting Highlands, in order to compare the dietary preferences and interspecific competition between the two primate families. A DNA metabarcoding approach was used to analyse diet intake using non-invasive samples based on the trnL region. Based on the 140 amplicon sequence variants (ASVs) generated, 26 plant orders, 46 different families, 60 genera and 49 species were identified from 23 different plant classes. Fabaceae and Moraceae were classified as the most preferred plants at the family level for S. syndactylus ; meanwhile, Piperaceae and Arecaceae were classified as the most preferred for M. nemestrina . Only six out of the 60 different plant genera classified in this study, were found to be consumed by both species. Therefore, the low similarity of preferred plants in the diets between the two families suggests that there is little interspecific competition. These findings are important for future conservation management of highland primates, especially in the Genting Highlands.

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          DADA2: High resolution sample inference from Illumina amplicon data

          We present DADA2, a software package that models and corrects Illumina-sequenced amplicon errors. DADA2 infers sample sequences exactly, without coarse-graining into OTUs, and resolves differences of as little as one nucleotide. In several mock communities DADA2 identified more real variants and output fewer spurious sequences than other methods. We applied DADA2 to vaginal samples from a cohort of pregnant women, revealing a diversity of previously undetected Lactobacillus crispatus variants.
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            Competitive Exclusion

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              Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding

              DNA barcoding should provide rapid, accurate and automatable species identifications by using a standardized DNA region as a tag. Based on sequences available in GenBank and sequences produced for this study, we evaluated the resolution power of the whole chloroplast trnL (UAA) intron (254–767 bp) and of a shorter fragment of this intron (the P6 loop, 10–143 bp) amplified with highly conserved primers. The main limitation of the whole trnL intron for DNA barcoding remains its relatively low resolution (67.3% of the species from GenBank unambiguously identified). The resolution of the P6 loop is lower (19.5% identified) but remains higher than those of existing alternative systems. The resolution is much higher in specific contexts such as species originating from a single ecosystem, or commonly eaten plants. Despite the relatively low resolution, the whole trnL intron and its P6 loop have many advantages: the primers are highly conserved, and the amplification system is very robust. The P6 loop can even be amplified when using highly degraded DNA from processed food or from permafrost samples, and has the potential to be extensively used in food industry, in forensic science, in diet analyses based on feces and in ancient DNA studies.
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                Author and article information

                Contributors
                Journal
                Biodivers Data J
                Biodivers Data J
                1
                urn:lsid:arphahub.com:pub:F9B2E808-C883-5F47-B276-6D62129E4FF4
                urn:lsid:zoobank.org:pub:245B00E9-BFE5-4B4F-B76E-15C30BA74C02
                Biodiversity Data Journal
                Pensoft Publishers
                1314-2836
                1314-2828
                2024
                22 May 2024
                : 12
                : e122453
                Affiliations
                [1 ] Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Bangi, 43600, Selangor, Malaysia Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia Bangi, 43600, Selangor Malaysia
                [2 ] Centre for Pre-University Studies, Universiti Malaysia Sarawak, 94300, Kota Samarahan, Sarawak, Malaysia Centre for Pre-University Studies, Universiti Malaysia Sarawak, 94300 Kota Samarahan, Sarawak Malaysia
                [3 ] National Wildlife Forensic Laboratory (NWFL), Department of Wildlife and National Parks (PERHILITAN), KM 10 Jalan Cheras, 56100 Kuala Lumpur, Malaysia National Wildlife Forensic Laboratory (NWFL), Department of Wildlife and National Parks (PERHILITAN), KM 10 Jalan Cheras 56100 Kuala Lumpur Malaysia
                [4 ] School of Biology, Faculty of Applied Sciences, Universiti Teknologi Mara Negeri Sembilan, 72000, Kuala Pilah, Negeri Sembilan, Malaysia School of Biology, Faculty of Applied Sciences, Universiti Teknologi Mara Negeri Sembilan, 72000 Kuala Pilah, Negeri Sembilan Malaysia
                [5 ] Faculty of Tropical Forestry, Universiti Malaysia Sabah, 88400, Kota Kinabalu, Sabah, Malaysia Faculty of Tropical Forestry, Universiti Malaysia Sabah, 88400 Kota Kinabalu, Sabah Malaysia
                [6 ] Genting Nature Adventure, Resorts World Awana Hotel, 69000, Genting Highlands, Pahang, Malaysia Genting Nature Adventure, Resorts World Awana Hotel, 69000, Genting Highlands Pahang Malaysia
                [7 ] Institute of Systems Biology, Universiti Kebangsaan Malaysia, Bangi, 43600, Selangor, Malaysia Institute of Systems Biology, Universiti Kebangsaan Malaysia Bangi, 43600, Selangor Malaysia
                Author notes
                Corresponding author: Badrul Munir Md-Zain ( abgbadd1966@ 123456yahoo.com ).

                Academic editor: Ricardo Moratelli

                Author information
                https://orcid.org/0000-0002-6739-656X
                https://orcid.org/0000-0002-9508-7481
                https://orcid.org/0000-0003-0052-4149
                https://orcid.org/0000-0003-4037-8115
                Article
                122453 24364
                10.3897/BDJ.12.e122453
                11137372
                38817270
                24522e97-a6a5-4390-b801-819c1a72102c
                Roberta Chaya Tawie Tingga, Millawati Gani, Nur Azimah Osman, Nor Rahman Aifat, Eddie Chan, Shamsul Khamis, Emelda Rosseleena Rohani, Norlinda Mohd-Daut, Abd Rahman Mohd-Ridwan, Badrul Munir Md-Zain

                This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 06 March 2024
                : 08 May 2024
                Page count
                Figures: 6, Tables: 1, References: 50
                Funding
                Ministry of Natural Resources, Environment and Climate Change, Malaysia; Universiti Kebangsaan Malaysia
                Categories
                Research Article

                cercopithecidae,diet,dna metabarcoding,hylobatidae,interspecific competition

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