65 results on '"Arida, E"'
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2. Genetic diversity and species identity of the critically endangered Rote Island snake-necked turtle, Chelodina mccordi Rhodin, 1994
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Devi, N A, primary, Eprilurahman, R, additional, Yudha, D S, additional, Raharjo, S, additional, As-Singkily, M, additional, Gunalen, D, additional, and Arida, E, additional
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- 2021
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3. Squeezing water from a stone: High-Throughput Sequencing from a 145-year old holotype resolves (barely) a cryptic species problem in flying lizards
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McGuire, JA, McGuire, JA, Cotoras, DD, O’Connell, B, Lawalata, SZS, Wang-Claypool, CY, Stubbs, A, Huang, X, Wogan, GOU, Hykin, SM, Reilly, SB, Bi, K, Riyanto, A, Arida, E, Smith, LL, Milne, H, Streicher, JW, Iskandar, DT, McGuire, JA, McGuire, JA, Cotoras, DD, O’Connell, B, Lawalata, SZS, Wang-Claypool, CY, Stubbs, A, Huang, X, Wogan, GOU, Hykin, SM, Reilly, SB, Bi, K, Riyanto, A, Arida, E, Smith, LL, Milne, H, Streicher, JW, and Iskandar, DT
- Abstract
We used Massively Parallel High-Throughput Sequencing to obtain genetic data from a 145-year old holotype specimen of the flying lizard, Draco cristatellus. Obtaining genetic data from this holotype was necessary to resolve an otherwise intractable taxonomic problem involving the status of this species relative to closely related sympatric Draco species that cannot otherwise be distinguished from one another on the basis of museum specimens. Initial analyses suggested that the DNA present in the holotype sample was so degraded as to be unusable for sequencing. However, we used a specialized extraction procedure developed for highly degraded ancient DNA samples and MiSeq shotgun sequencing to obtain just enough low-coverage mitochondrial DNA (547 base pairs) to conclusively resolve the species status of the holotype as well as a second known specimen of this species. The holotype was prepared before the advent of formalin-fixation and therefore was most likely originally fixed with ethanol and never exposed to formalin. Whereas conventional wisdom suggests that formalin-fixed samples should be the most challenging for DNA sequencing, we propose that evaporation during long-term alcohol storage and consequent water-exposure may subject older ethanol-fixed museum specimens to hydrolytic damage. If so, this may pose an even greater challenge for sequencing efforts involving historical samples.
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- 2021
4. Genetic diversity and species identity of the critically endangered Rote Island snake-necked turtle, Chelodina mccordi Rhodin, 1994
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Devi, N.A., Eprilurahman, R., Yudha, D.S., Raharjo, S., As-Singkily, M., Gunalen, D., Arida, E., Devi, N.A., Eprilurahman, R., Yudha, D.S., Raharjo, S., As-Singkily, M., Gunalen, D., and Arida, E.
- Abstract
The endemic Chelodina mccordi is considered extinct in the wild; however, ex-situ populations are thriving and sampled for our genetic diversity assessment. We used three sequences resulting from blood and tissue samples of five individual turtles amplified for 650-bp cytochrome oxidase I (COI) fragment of the mitochondrial DNA. We analysed a total of 30 barcoding DNA sequences for phylogenetic relationships and genetic distances among Chelodina spp. Nucleotide diversity of eight C. mccordi samples is 0.007 0.001 with a haplotype diversity of 0.893 0.086. All these samples form a monophyletic clade that is sister to a clade of Australian and New Guinean long-necked turtles. Genetic distances calculated using Kimura 2-paramater model among C. mccordi sequences range between 0.2% and 1.5%, while a few others are without distance. The shortest genetic distance is between individuals from Rote Island, whereas the longest distance was found between individuals, each of which was derived from parental stocks originating in Rote and Timor islands. A genetic distance of 1.1% - 1.5% is likely to denote distinction at subspecies level. Results of this study could help in reintroducing captive individuals into their natural habitats. Thus, captive breeding programme of this species may help its conservation.
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- 2021
5. Crossing Lydekker's Line: Northern Water Dragons (Tropicagama temporalis) Colonized the Mollucan Islands of Indonesia from New Guinea
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Karin, BR, Karin, BR, Stubbs, AL, Arifin, U, Iskandar, DT, Arida, E, Austin, CC, McGuire, JA, Karin, BR, Karin, BR, Stubbs, AL, Arifin, U, Iskandar, DT, Arida, E, Austin, CC, and McGuire, JA
- Abstract
Wallace's and Lydekker's Lines both describe important biogeographic barriers in the Indo-Australian Archipelago, with Wallace's Line demarcating the boundary of the Greater Sunda Shelf and Lydekker's Line indicating the edge of the Sahul continental shelf. Despite their similarities, Wallace's Line has been much more heavily studied than has Lydekker's Line, yet provides an interesting system for testing the source of fauna into eastern Wallacea. New collections of Northern Water Dragons, Tropicagama temporalis, from several islands in Maluku, eastern Indonesia now allow for an assessment of the phylogeography of the species and the ability to test if New Guinean or Australian populations served as the source for over-water dispersal across Lydekker's Line into Maluku. We collected specimens from remote islands in eastern Indonesia, sequenced the mitochondrial ND2 gene, and aligned the data to previously sequenced specimens on GenBank. We conducted several phylogenetic and divergence time analyses to investigate the source population and timing of dispersal. We found low genetic diversity among the islands in Maluku, and these samples showed little genetic divergence from New Guinea samples. The New Guinea and Maluku populations diverged less than 1 million years ago (Ma) and together diverged from the Australian population between 2.3 and 4.7 Ma. These results, along with patterns in other taxa, illustrated that, despite Australia's close geographic proximity to many of the islands in southeastern Indonesia, New Guinea has been the more frequent source of Wallacean fauna from Sahul.
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- 2020
6. Reassessment on the monophyly of the fruit-piercing moth, Eudocima bilberg, 1820 (Lepidoptera: Erebidae) using molecular data.
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Dharmayanthi, A B, Arida, E, Darmawan, Wiyati, S Y, Haryoko, T, Zein, M S A, and Sutrisno, H
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- 2021
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7. Leap-frog dispersal and mitochondrial introgression: Phylogenomics and biogeography of Limnonectes fanged frogs in the Lesser Sundas Archipelago of Wallacea
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Reilly, SB, Reilly, SB, Stubbs, AL, Karin, BR, Bi, K, Arida, E, Iskandar, DT, McGuire, JA, Reilly, SB, Reilly, SB, Stubbs, AL, Karin, BR, Bi, K, Arida, E, Iskandar, DT, and McGuire, JA
- Abstract
Aim: The Lesser Sunda Islands are situated between the Sunda and Sahul Shelves, with a linear arrangement that has functioned as a two-way filter for taxa dispersing between the Asian and Australo-Papuan biogeographical realms. Distributional patterns of many terrestrial vertebrates suggest a stepping-stone model of island colonization. Here we investigate the timing and sequence of island colonization in Asian-origin fanged frogs from the volcanic Sunda Arc islands with the goal of testing the stepping-stone model of island colonization. Location: The Indonesian islands of Java, Lombok, Sumbawa, Flores and Lembata. Taxon: Limnonectes dammermani and L. kadarsani (Family: Dicroglossidae). Methods: Mitochondrial DNA was sequenced from 153 frogs to identify major lineages and to select samples for an exon-capture experiment. We designed probes to capture sequence data from 974 exonic loci (1,235,981 bp) from 48 frogs including the outgroup species, L. microdiscus. The resulting data were analysed using phylogenetic, population genetic and biogeographical model testing methods. Results: The mtDNA phylogeny finds L. kadarsani paraphyletic with respect to L. dammermani, with a pectinate topology consistent with the stepping-stone model. Phylogenomic analyses of 974 exons recovered the two species as monophyletic sister taxa that diverged ~7.6 Ma with no detectable contemporary gene flow, suggesting introgression of the L. dammermani mitochondrion into L. kadarsani on Lombok resulting from an isolated ancient hybridization event ~4 Ma. Within L. kadarsani, the Lombok lineage diverged first while the Sumbawa and Lembata lineages are nested within a Flores assemblage composed of two parapatrically distributed lineages meeting in central Flores. Biogeographical model comparison found strict stepping-stone dispersal to be less likely than models involving leap-frog dispersal events. Main conclusions: These results suggest that the currently accepted stepping-sto
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- 2019
8. Recent colonization and expansion through the Lesser Sundas by seven amphibian and reptile species
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Reilly, SB, Reilly, SB, Stubbs, AL, Karin, BR, Arida, E, Iskandar, DT, McGuire, JA, Reilly, SB, Reilly, SB, Stubbs, AL, Karin, BR, Arida, E, Iskandar, DT, and McGuire, JA
- Abstract
The Lesser Sundas Archipelago is comprised of two parallel chains of islands that extend between the Asian continental shelf (Sundaland) and Australo-Papuan continental shelf (Sahul). These islands have served as stepping stones for taxa dispersing between the Asian and Australo-Papuan biogeographical realms. While the oceanic barriers have prevented many species from colonizing the archipelago, a number of terrestrial vertebrate species have colonized the islands either by rafting/swimming or by human introduction. Here, we examine phylogeographic structure within the Lesser Sundas for three snake, two lizard and two frog species that each has a Sunda Shelf origin. These species are suspected to have recently colonized the archipelago, though all have inhabited the Lesser Sundas for over 100 years. We sequenced mtDNA from 231 samples to test whether there is sufficiently deep genetic structure within any of these taxa to reject human-mediated introduction. Additionally, we tested for genetic signatures of population expansion consistent with recent introduction and estimated the ages of Lesser Sundas clades, if any exist. Our results show little to no genetic structure between populations on different islands in five species and moderate structure in two species. Nucleotide diversity is low for all species, and the ages of the most recent common ancestor for species with monophyletic Lesser Sundas lineages date to the Holocene or late Pleistocene. These results support the hypothesis that these species entered the archipelago relatively recently and either naturally colonized or were introduced by humans to most of the larger islands in the archipelago within a short time span.
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- 2019
9. Development of unidentified dna-specific hif 1α gene of lizard (hemidactylus platyurus) which plays a role in tissue regeneration process
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Novianti, T, primary, Sadikin, M, additional, Widia, S, additional, Juniantito, V, additional, and Arida, E A, additional
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- 2018
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10. Preparation of projection-less particles from influenza virus and their messenger activities in prokaryotic and eukaryotic systems
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Arida, E. N. and Hultin, T.
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- 1978
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11. Pressing problems: distribution, threats, and conservation status of the monitor lizards (Varanidae: Varanus spp.) of Southeast Asia and the Indo-Australian Archipelago
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Koch, A., Ziegler, T., Böhme, W., Arida, E., Auliya, Mark, Koch, A., Ziegler, T., Böhme, W., Arida, E., and Auliya, Mark
- Abstract
We update an earlier review (Mertens 1959) of the monitor lizards of Southeast Asia and the Indo-Australian Archipelago, emphasizing the importance of this island region as a center of varanid diversity and endemism. Currently, 44 monitor lizard species (i.e., 60% of the known global varanid diversity) are recognized from this vast study region. New Guinea and the surrounding offshore islands harbor the highest diversity in terms of species (15) and subgenera (four). We provide a detailed identification key to all monitor lizards found in the study area. Moreover, we critically review the conservation status of all monitor lizard species involved as needed in light of urgent conservation issues. Major threats to monitor lizards include: (1) habitat destruction; (2) the international trade in reptile skins and in monitors as pets; and (3) human consumption. Current export figures of seven focal monitor species (i.e., Varanus beccarii, V. boehmei, V. macraei, V. melinus, V. prasinus, V. salvator, and V.yuwonoi) of the commercial skin and pet trade reflect export allowances that are not based on sound information from population studies, meaning that current harvest levels may be unsustainable and could threaten the viability of these Indonesian island endemics. Therefore, these monitor lizard species require special attention by the relevant authorities and conservationists of both the source and the consuming countries. The conservation status of all monitor lizard species and their assessment in the International Union for Conservation of Nature (IUCN) Red List isin need of a critical update and we strongly recommend the establishment of an IUCN Species Survival Commission (SSC) Monitor Specialist Group. Therefore, this review of distribution, threats, and conservation status of Southeast Asian and Indo-Australian monitor lizards is intended to support customs officers and other government agents in: (1) more strictly enforcing the regulations of the Convention on I
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- 2013
12. Measurement of procalcitonin in bronchoalveolar lavage and serum as early predictors in acute respiratory distress syndrome
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Razek, A Abdel, primary, Arida, E Abdel, additional, and Deghady, A, additional
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- 2008
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13. First record of Gekko smithii Gray, 1842 (Reptilia: Gekkonidae) from Sulawesi, Indonesia
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Koch, A., Jimmy McGuire, Arida, E., Riyanto, A., and Hamidy, A.
14. Virus-related genetic material in cancer and blood specimens from humans
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Arida, E., primary
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- 1977
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15. Biologically active RNA in inactivated Swine Flu concentrate.
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Arida, E, primary and Hultin, T, additional
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- 1977
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16. Detection of viral genes and core proteins of flavoviruses in human blood specimens.
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Arida, E, primary
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- 1977
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17. Alteration of the transformation of normal human monocytes to lipid-engorged foam cells by benzyltetrahydroisoquinolines
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ARIDA, E
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- 1994
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18. The natural and human-mediated expansion of a human-commensal lizard into the fringes of Southeast Asia.
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Karin BR, Lough-Stevens M, Lin TE, Reilly SB, Barley AJ, Das I, Iskandar DT, Arida E, Jackman TR, McGuire JA, and Bauer AM
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- Animals, Humans, Phylogeny, Asia, Southeastern, Phylogeography, Indonesia, Lizards genetics
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Background: Human-commensal species often display deep ancestral genetic structure within their native range and founder-effects and/or evidence of multiple introductions and admixture in newly established areas. We investigated the phylogeography of Eutropis multifasciata, an abundant human-commensal scincid lizard that occurs across Southeast Asia, to determine the extent of its native range and to assess the sources and signatures of human introduction outside of the native range. We sequenced over 350 samples of E. multifasciata for the mitochondrial ND2 gene and reanalyzed a previous RADseq population genetic dataset in a phylogenetic framework., Results: Nuclear and mitochondrial trees are concordant and show that E. multifasciata has retained high levels of genetic structure across Southeast Asia despite being frequently moved by humans. Lineage boundaries in the native range roughly correspond to several major biogeographic barriers, including Wallace's Line and the Isthmus of Kra. Islands at the outer fringe of the range show evidence of founder-effects and multiple introductions., Conclusions: Most of enormous range of E. multifasciata across Southeast Asia is native and it only displays signs of human-introduction or recent expansion along the eastern and northern fringe of its range. There were at least three events of human-introductions to Taiwan and offshore islands, and several oceanic islands in eastern Indonesia show a similar pattern. In Myanmar and Hainan, there is a founder-effect consistent with post-warming expansion after the last glacial maxima or human introduction., (© 2024. The Author(s).)
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- 2024
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19. Bewildering biogeography: Waves of dispersal and diversification across southern Wallacea by bent-toed geckos (genus: Cyrtodactylus).
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Reilly SB, Stubbs AL, Karin BR, Arida E, Arifin U, Hamidy A, Kaiser H, Bi K, Riyanto A, Iskandar DT, and McGuire JA
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- Animals, Phylogeny, Indonesia, Philippines, Coleoptera, Lizards genetics
- Abstract
Bent-toed Geckos, genus Cyrtodactylus, are one of the most diverse terrestrial vertebrate groups, and their range extends from South Asia into Australo-Papua and adjacent Pacific islands. Given the generally high faunal endemism on Wallacean islands, it is rather paradoxical that the diversity in these geckos appears to be so low (21 species in Wallacea, 15 in the Philippines) compared with continental shelf assemblages (>300 species on Sunda + Sahul Shelves + adjacent islands). To determine whether this shortfall was real or an artifact of historical undersampling, we analyzed mitochondrial DNA sequences of hundreds of southern Wallacean samples (Lesser Sundas + southern Maluku). After screening to guide sample selection for target capture data collection, we obtained a 1150-locus genomic dataset (1,476,505 bp) for 119 samples of southern Wallacean and closely related lineages. The results suggest that species diversity of Cyrtodactylus in southern Wallacea is vastly underestimated, with phylogenomic and clustering analyses suggesting as many as 25 candidate species, in contrast to the 8 currently described. Gene exchange between adjacent candidate species is absent or minimal across the archipelago with only one case of > 0.5 migrants per generation. Biogeographical analysis suggests that the hitherto unrecognized diversity is the result of at least three independent dispersals from Sulawesi or its offshore islands into southern Wallacea between 6 and 14 Ma, with one invasion producing small-bodied geckos and the other two or three producing larger-bodied geckos. The smaller-bodied laevigatus group appears to be able to coexist with members of either larger-bodied clade, but we have yet to find members of the two larger-bodied clades occurring in sympatry, suggesting that ecological partitioning or competitive exclusion may be shaping individual island assemblages., Competing Interests: Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2023 The Author(s). Published by Elsevier Inc. All rights reserved.)
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- 2023
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20. Elevational surveys of Sulawesi herpetofauna 1: Gunung Galang, Gunung Dako Nature Reserve.
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Karin BR, Krone IW, Frederick J, Hamidy A, Laksono WT, Amini SS, Arida E, Arifin U, Bach BH, Bos C, Jennings CK, Riyanto A, Scarpetta SG, Stubbs AL, and McGuire JA
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- Indonesia, Geography, Geology, Biodiversity, Checklist
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The Indonesian island of Sulawesi has a unique geology and geography, which have produced an astoundingly diverse and endemic flora and fauna and a fascinating biogeographic history. Much biodiversity research has focused on the regional endemism in the island's Central Core and on its four peninsulas, but the biodiversity of the island's many upland regions is still poorly understood for most taxa, including amphibians and reptiles. Here, we report the first of several planned full-mountain checklists from a series of herpetological surveys of Sulawesi's mountains conducted by our team. In more than 3 weeks of work on Gunung Galang, a 2,254 m peak west of the city of Tolitoli, Sulawesi Tengah Province, on Sulawesi's Northern Peninsula, we recovered nearly fifty species of reptiles and amphibians, more than a dozen of which are either new to science or known but undescribed. The incompleteness of our sampling suggests that many more species remain to be discovered on and around this mountain., Competing Interests: The authors declare that they have no competing interests., (© 2023 Karin et al.)
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- 2023
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21. Species Delimitation, Phylogenomics, and Biogeography of Sulawesi Flying Lizards: A Diversification History Complicated by Ancient Hybridization, Cryptic Species, and Arrested Speciation.
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Mcguire JA, Huang X, Reilly SB, Iskandar DT, Wang-Claypool CY, Werning S, Chong RA, Lawalata SZS, Stubbs AL, Frederick JH, Brown RM, Evans BJ, Arifin U, Riyanto A, Hamidy A, Arida E, Koo MS, Supriatna J, Andayani N, and Hall R
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- Animals, Phylogeny, Indonesia, Phylogeography, Genetics, Population, Genetic Speciation, Lizards genetics
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The biota of Sulawesi is noted for its high degree of endemism and for its substantial levels of in situ biological diversification. While the island's long period of isolation and dynamic tectonic history have been implicated as drivers of the regional diversification, this has rarely been tested in the context of an explicit geological framework. Here, we provide a tectonically informed biogeographical framework that we use to explore the diversification history of Sulawesi flying lizards (the Draco lineatus Group), a radiation that is endemic to Sulawesi and its surrounding islands. We employ a framework for inferring cryptic speciation that involves phylogeographic and genetic clustering analyses as a means of identifying potential species followed by population demographic assessment of divergence-timing and rates of bi-directional migration as means of confirming lineage independence (and thus species status). Using this approach, phylogenetic and population genetic analyses of mitochondrial sequence data obtained for 613 samples, a 50-SNP data set for 370 samples, and a 1249-locus exon-capture data set for 106 samples indicate that the current taxonomy substantially understates the true number of Sulawesi Draco species, that both cryptic and arrested speciations have taken place, and that ancient hybridization confounds phylogenetic analyses that do not explicitly account for reticulation. The Draco lineatus Group appears to comprise 15 species-9 on Sulawesi proper and 6 on peripheral islands. The common ancestor of this group colonized Sulawesi ~11 Ma when proto-Sulawesi was likely composed of two ancestral islands, and began to radiate ~6 Ma as new islands formed and were colonized via overwater dispersal. The enlargement and amalgamation of many of these proto-islands into modern Sulawesi, especially during the past 3 Ma, set in motion dynamic species interactions as once-isolated lineages came into secondary contact, some of which resulted in lineage merger, and others surviving to the present. [Genomics; Indonesia; introgression; mitochondria; phylogenetics; phylogeography; population genetics; reptiles.]., (© The Author(s) 2023. Published by Oxford University Press on behalf of the Society of Systematic Biologists.)
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- 2023
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22. Sexual dimorphism and reproductive biology of the Asian bockadam snake (Cerberus schneiderii) in West Java.
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Herlambang AEN, Kusrini MD, Hamidy A, Arida E, Mumpuni, Riyanto A, Shine R, and Natusch D
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- Female, Male, Humans, Animals, Indonesia, Asian People, Biology, Sex Characteristics, Colubridae
- Abstract
Although they are among the most abundant snakes on Earth, and are heavily exploited for their skins and meat, Asian bockadams (or "dog-faced water snakes", Cerberus schneiderii) have attracted relatively little study across their wide geographic range. Based on dissection of 3,382 snakes brought to processing facilities in and around the city of Cirebon in West Java, Indonesia, we document facets of the biology of these mangrove-dwelling aquatic homalopsids. Females attain larger body sizes than do males, and are heavier-bodied (due in part to greater fat reserves) but have shorter tails relative to snout-vent length. Males showed testicular enlargement late in the year (August-November) but both reproductive and non-reproductive females were found year-round. Litters were large (3 to 45 offspring), especially in larger females. The commercial harvest falls mainly on adult snakes of both sexes, with seasonal variation in sex ratios. Life-history traits such as early maturation and frequent production of large litters render this species resilient to commercial harvesting. Future research should explore reasons for strong variation among facilities in the sex ratios of snakes, potentially identifying ways to focus the harvest on the sex (males) whose numbers are less critical for population viability., (© 2022. The Author(s).)
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- 2022
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23. Melanesia holds the world's most diverse and intact insular amphibian fauna.
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Oliver PM, Bower DS, McDonald PJ, Kraus F, Luedtke J, Neam K, Hobin L, Chauvenet ALM, Allison A, Arida E, Clulow S, Günther R, Nagombi E, Tjaturadi B, Travers SL, and Richards SJ
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- Animals, Melanesia, Anura, Biodiversity, Biota
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Identifying hotspots of biological diversity is a key step in conservation prioritisation. Melanesia-centred on the vast island of New Guinea-is increasingly recognised for its exceptionally species-rich and endemic biota. Here we show that Melanesia has the world's most diverse insular amphibian fauna, with over 7% of recognised global frog species in less than 0.7% of the world's land area, and over 97% of species endemic. We further estimate that nearly 200 additional candidate species have been discovered but remain unnamed, pointing to a total fauna in excess of 700 species. Nearly 60% of the Melanesian frog fauna is in a lineage of direct-developing microhylids characterised by smaller distributions than co-occurring frog families, suggesting lineage-specific high beta diversity is a key driver of Melanesian anuran megadiversity. A comprehensive conservation status assessment further highlights geographic concentrations of recently described range-restricted threatened taxa that warrant urgent conservation actions. Nonetheless, by world standards, the Melanesian frog fauna is relatively intact, with 6% of assessed species listed as threatened and no documented extinctions; and thus it provides an unparalleled opportunity to understand and conserve a megadiverse and relatively intact insular biota., (© 2022. The Author(s).)
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- 2022
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24. Diverge and Conquer: Phylogenomics of southern Wallacean forest skinks (Genus: Sphenomorphus) and their colonization of the Lesser Sunda Archipelago.
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Reilly SB, Karin BR, Stubbs AL, Arida E, Arifin U, Kaiser H, Bi K, Hamidy A, Iskandar DT, and McGuire JA
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- Animals, Phylogeny, Gene Flow, Genome, Forests, Phylogeography, Lizards genetics
- Abstract
The archipelagos of Wallacea extend between the Sunda and Sahul Shelves, serving as a semipermeable two-way filter influencing faunal exchange between Asia and Australo-Papua. Forest skinks (Genus Sphenomorphus) are widespread throughout southern Wallacea and exhibit complex clinal, ontogenetic, sexual, and seasonal morphological variation, rendering species delimitation difficult. We screened a mitochondrial marker for 245 Sphenomorphus specimens from this area to inform the selection of 104 samples from which we used targeted sequence capture to generate a dataset of 1154 nuclear genes (∼1.8 Mb) plus complete mitochondrial genomes. Phylogenomic analyses recovered many deeply divergent lineages, three pairs of which are now sympatric, that began to diversify in the late Miocene shortly after the oldest islands are thought to have become emergent. We infer a complex and nonstepping-stone pattern of island colonization, with the group having originated in the Sunda Arc islands before using Sumba as a springboard for colonization of the Banda Arcs. Estimates of population structure and gene flow across the region suggest total isolation except between two Pleistocene Aggregate Island Complexes that become episodically land-bridged during glacial maxima. These historical processes have resulted in at least 11 Sphenomorphus species in the region, nine of which require formal description. This fine-scale geographic partitioning of undescribed species highlights the importance of utilizing comprehensive genomic studies for defining biodiversity hotspots to be considered for conservation protection., (© 2022 The Authors. Evolution © 2022 The Society for the Study of Evolution.)
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- 2022
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25. A set of principles and practical suggestions for equitable fieldwork in biology.
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Ramírez-Castañeda V, Westeen EP, Frederick J, Amini S, Wait DR, Achmadi AS, Andayani N, Arida E, Arifin U, Bernal MA, Bonaccorso E, Bonachita Sanguila M, Brown RM, Che J, Condori FP, Hartiningtias D, Hiller AE, Iskandar DT, Jiménez RA, Khelifa R, Márquez R, Martínez-Fonseca JG, Parra JL, Peñalba JV, Pinto-García L, Razafindratsima OH, Ron SR, Souza S, Supriatna J, Bowie RCK, Cicero C, McGuire JA, and Tarvin RD
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- Humans, Bioethical Issues, Biology ethics
- Abstract
Field biology is an area of research that involves working directly with living organisms in situ through a practice known as "fieldwork." Conducting fieldwork often requires complex logistical planning within multiregional or multinational teams, interacting with local communities at field sites, and collaborative research led by one or a few of the core team members. However, existing power imbalances stemming from geopolitical history, discrimination, and professional position, among other factors, perpetuate inequities when conducting these research endeavors. After reflecting on our own research programs, we propose four general principles to guide equitable, inclusive, ethical, and safe practices in field biology: be collaborative, be respectful, be legal, and be safe. Although many biologists already structure their field programs around these principles or similar values, executing equitable research practices can prove challenging and requires careful consideration, especially by those in positions with relatively greater privilege. Based on experiences and input from a diverse group of global collaborators, we provide suggestions for action-oriented approaches to make field biology more equitable, with particular attention to how those with greater privilege can contribute. While we acknowledge that not all suggestions will be applicable to every institution or program, we hope that they will generate discussions and provide a baseline for training in proactive, equitable fieldwork practices.
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- 2022
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26. Phylogenetic relationships of southern Wallacean ranid frogs (Anura: Ranidae: Hylarana).
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Reilly SB, Arifin U, Stubbs AL, Karin BR, Kaiser H, Frederick JH, Arida E, Iskandar DT, and McGuire JA
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- Animals, Phylogeny, DNA, Mitochondrial genetics, Ranidae genetics
- Abstract
Frogs in the family Ranidae are diverse in Asia and are thought to have dispersed to the Sahul Shelf approximately 10 million years ago, where they radiated into more than a dozen species. Ranid species in the intervening oceanic islands of Wallacea, such as Hylarana florensis and H. elberti from the Lesser Sundas and H. moluccana from eastern Wallacea, are assumed to belong to the subgenus Papurana, yet this has not been confirmed with molecular data. We analyzed mitochondrial DNA of Hylarana species from five islands spanning the reported ranges of H. florensis and H. elberti and compared them to confirmed Papurana species and closely related subgenera within Hylarana. We find that the Lesser Sunda H. florensis and H. elberti form a clade that is sister to the rest of the Australo-Papuan Papurana assemblage. Species delimitation analyses and divergence time estimates suggest that populations of H. florensis on Lombok may be distinct from those on Flores at the species level. Likewise, populations of H. elberti on Sumba and Timor may be distinct from each other and from those on Wetar, tshe type locality of H. elberti. Samples from Babar Island thought to be members of H. elberti in fact belong to the wide-ranging H. daemeli, which occurs in northern Australia, across New Guinea, and on the neighboring island of Tanimbar. These results suggest that the Lesser Sundas may have served as a stepping-stone for colonization of the Sahul Shelf and that species diversity of Papurana frogs is underestimated in the Lesser Sundas.
- Published
- 2022
- Full Text
- View/download PDF
27. Phylogenomic Analysis Reveals Dispersal-Driven Speciation and Divergence with Gene Flow in Lesser Sunda Flying Lizards (Genus Draco).
- Author
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Reilly SB, Stubbs AL, Arida E, Karin BR, Arifin U, Kaiser H, Bi K, Iskandar DT, and McGuire JA
- Subjects
- Animals, Indonesia, Phylogeny, Phylogeography, Gene Flow, Lizards genetics
- Abstract
The Lesser Sunda Archipelago offers exceptional potential as a model system for studying the dynamics of dispersal-driven diversification. The geographic proximity of the islands suggests the possibility for successful dispersal, but this is countered by the permanence of the marine barriers and extreme intervening currents that are expected to hinder gene flow. Phylogenetic and species delimitation analyses of flying lizards (genus Draco) using single mitochondrial genes, complete mitochondrial genomes, and exome-capture data sets identified 9-11 deeply divergent lineages including single-island endemics, lineages that span multiple islands, and parapatrically distributed nonsister lineages on the larger islands. Population clustering and PCA confirmed these genetic boundaries with isolation-by-distance playing a role in some islands or island sets. While gdi estimates place most candidate species comparisons in the ambiguous zone, migration estimates suggest 9 or 10 species exist with nuclear introgression detected across some intra-island contact zones. Initial entry of Draco into the archipelago occurred at 5.5-7.5 Ma, with most inter-island colonization events having occurred between 1-3 Ma. Biogeographical model testing favors scenarios integrating geographic distance and historical island connectivity, including an initial stepping-stone dispersal process from the Greater Sunda Shelf through the Sunda Arc as far eastward as Lembata Island. However, rather than reaching the adjacent island of Pantar by dispersing over the 15-km wide Alor Strait, Draco ultimately reached Pantar (and much of the rest of the archipelago) by way of a circuitous route involving at least five overwater dispersal events. These findings suggest that historical geological and oceanographic conditions heavily influenced dispersal pathways and gene flow, which in turn drove species formation and shaped species boundaries. [Biogeography; genomics, Indonesia; lizards; phylogeography; reptiles]., (© The Author(s) 2021. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. All rights reserved. For permissions, please email: journals.permissions@oup.com.)
- Published
- 2021
- Full Text
- View/download PDF
28. Exploring the vertebrate fauna of the Bird's Head Peninsula (Indonesia, West Papua) through DNA barcodes.
- Author
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Arida E, Ashari H, Dahruddin H, Fitriana YS, Hamidy A, Irham M, Kadarusman, Riyanto A, Wiantoro S, Zein MSA, Hadiaty RK, Apandi, Krey F, Kurnianingsih, Melmambessy EHP, Mulyadi, Ohee HL, Saidin, Salamuk A, Sauri S, Suparno, Supriatna N, Suruwaky AM, Laksono WT, Warikar EL, Wikanta H, Yohanita AM, Slembrouck J, Legendre M, Gaucher P, Cochet C, Delrieu-Trottin E, Thébaud C, Mila B, Fouquet A, Borisenko A, Steinke D, Hocdé R, Semiadi G, Pouyaud L, and Hubert N
- Subjects
- Animals, Birds genetics, DNA, Indonesia, Phylogeny, Vertebrates genetics, Biodiversity, DNA Barcoding, Taxonomic
- Abstract
Biodiversity knowledge is widely heterogeneous across the Earth's biomes. Some areas, due to their remoteness and difficult access, present large taxonomic knowledge gaps. Mostly located in the tropics, these areas have frequently experienced a fast development of anthropogenic activities during the last decades and are therefore of high conservation concerns. The biodiversity hotspots of Southeast Asia exemplify the stakes faced by tropical countries. While the hotspots of Sundaland (Java, Sumatra, Borneo) and Wallacea (Sulawesi, Moluccas) have long attracted the attention of biologists and conservationists alike, extensive parts of the Sahul area, in particular the island of New Guinea, have been much less explored biologically. Here, we describe the results of a DNA-based inventory of aquatic and terrestrial vertebrate communities, which was the objective of a multidisciplinary expedition to the Bird's Head Peninsula (West Papua, Indonesia) conducted between 17 October and 20 November 2014. This expedition resulted in the assembly of 1005 vertebrate DNA barcodes. Based on the use of multiple species-delimitation methods (GMYC, PTP, RESL, ABGD), 264 molecular operational taxonomic units (MOTUs) were delineated, among which 75 were unidentified and an additional 48 were considered cryptic. This study suggests that the diversity of vertebrates of the Bird's Head is severely underestimated and considerations on the evolutionary origin and taxonomic knowledge of these biotas are discussed., (© 2021 John Wiley & Sons Ltd.)
- Published
- 2021
- Full Text
- View/download PDF
29. Whos your daddy? On the identity and distribution of the paternal hybrid ancestor of the parthenogenetic gecko Lepidodactylus lugubris (Reptilia: Squamata: Gekkonidae).
- Author
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Karin BR, Oliver PM, Stubbs AL, Arifin U, Iskandar DT, Arida E, Oong Z, McGuire JA, Kraus F, Fujita MK, Ineich I, Ota H, Hathaway SA, and Fisher RN
- Subjects
- Animals, Hybridization, Genetic, Parthenogenesis, Phylogeny, Lizards genetics
- Abstract
The widespread parthenogenetic gecko Lepidodactylus lugubris is comprised of several clonal lineages, at least one of which has been known for some time to have originated from hybridization between its maternal ancestor, Lepidodactylus moestus, and a putatively undescribed paternal ancestor previously known only from remote islands in the Central Pacific. By integrating new genetic sequences from multiple studies on Lepidodactylus and incorporating new genetic sequences from previously sampled populations, we recovered a phylogenetic tree that shows a close genetic similarity between the generally hypothesized paternal hybrid ancestor and a recently described species from Maluku (Indonesia), Lepidodactylus pantai. Our results suggest that the paternal hybrid ancestor of at least one parthenogenetic clone of L. lugubris is conspecific with L. pantai and that the range of this species extends to Palau, the Caroline Islands, the Kei Islands, Wagabu, and potentially other small islands near New Guinea. Deeper genetic structure in the western (Palau, Maluku) versus eastern (eastern Melanesia, Micronesia, Polynesia) part of this species range suggests that the western populations likely dispersed via natural colonization, whereas the eastern populations may be the result of human-mediated dispersal. The potential taxonomic affinities and biogeographic history should be confirmed with further morphological and genetic analyses, including research on L. woodfordi from its type locality, which would have nomenclatural priority if found to be conspecific with L. pantai. We recommend referring to the wide-ranging sexual species as Lepidodactylus pantai until such a comparison can be made.
- Published
- 2021
- Full Text
- View/download PDF
30. Molecular phylogeny of Asian pipesnakes, genus Cylindrophis Wagler, 1828 (Squamata: Cylindrophiidae), with the description of a new species from Myanmar.
- Author
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Bernstein JM, Bauer AM, McGuire JA, Arida E, Kaiser H, Kieckbusch M, and Mecke S
- Subjects
- Animal Distribution, Animals, Myanmar, Phylogeny, Snakes
- Abstract
Cylindrophis is a genus of secretive, semi-fossorial, non-venomous snakes comprising 14 species, characterized by a generally cylindrical body, uniform scales (with barely enlarged ventrals), and vestiges of pelvic and limb bones, the latter terminating in a claw lateral to the vent. We reconstructed a concatenated molecular phylogeny of seven taxa of Cylindrophis taxa based on one nuclear (R35) and two mitochondrial (16S, ND2) genes. Analyses recovered the Sri Lankan endemic C. maculatus as sister to all other sampled Cylindrophis. The mainland Southeast Asian species C. burmanus and C. jodiae form successive sister lineages to a monophyletic Wallacean island group containing C. boulengeri, C. isolepis, and C. yamdena. We also describe a new species of Cylindrophis, morphologically similar to C. burmanus, from Kachin State in northern Myanmar. Cylindrophis slowinskii sp. nov. is distinguished from all congeners by the following combination of characters: 19 dorsal scale rows at midbody, 216-220 ventrals, eight subcaudals, a dark venter with > 60 very narrow diffuse pale blotches, and a pale bar running along the posterior border of the prefrontals. In our phylogeny, the new species is strongly supported as the sister species of C. burmanus. It is the 15th currently recognised species in the genus, and the fourth from mainland Southeast Asia.
- Published
- 2020
- Full Text
- View/download PDF
31. Habitat preference modulates trans-oceanic dispersal in a terrestrial vertebrate.
- Author
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Blom MPK, Matzke NJ, Bragg JG, Arida E, Austin CC, Backlin AR, Carretero MA, Fisher RN, Glaw F, Hathaway SA, Iskandar DT, McGuire JA, Karin BR, Reilly SB, Rittmeyer EN, Rocha S, Sanchez M, Stubbs AL, Vences M, and Moritz C
- Subjects
- Animals, Biological Evolution, Ecosystem, Lizards classification, Lizards genetics, Oceans and Seas, Phylogeny, Phylogeography, Population Dynamics, Animal Distribution, Lizards physiology
- Abstract
The importance of long-distance dispersal (LDD) in shaping geographical distributions has been debated since the nineteenth century. In terrestrial vertebrates, LDD events across large water bodies are considered highly improbable, but organismal traits affecting dispersal capacity are generally not taken into account. Here, we focus on a recent lizard radiation and combine a summary-coalescent species tree based on 1225 exons with a probabilistic model that links dispersal capacity to an evolving trait, to investigate whether ecological specialization has influenced the probability of trans-oceanic dispersal. Cryptoblepharus species that occur in coastal habitats have on average dispersed 13 to 14 times more frequently than non-coastal species and coastal specialization has, therefore, led to an extraordinarily widespread distribution that includes multiple continents and distant island archipelagoes. Furthermore, their presence across the Pacific substantially predates the age of human colonization and we can explicitly reject the possibility that these patterns are solely shaped by human-mediated dispersal. Overall, by combining new analytical methods with a comprehensive phylogenomic dataset, we use a quantitative framework to show how coastal specialization can influence dispersal capacity and eventually shape geographical distributions at a macroevolutionary scale.
- Published
- 2019
- Full Text
- View/download PDF
32. Venom Composition in a Phenotypically Variable Pit Viper ( Trimeresurus insularis) across the Lesser Sunda Archipelago.
- Author
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Jones BK, Saviola AJ, Reilly SB, Stubbs AL, Arida E, Iskandar DT, McGuire JA, Yates JR 3rd, and Mackessy SP
- Subjects
- Animals, Antivenins pharmacology, Conserved Sequence, Crotalid Venoms isolation & purification, Electrophoresis, Polyacrylamide Gel, Fibrinogen chemistry, Gelatin chemistry, Gene Expression, Indonesia, Islands, L-Amino Acid Oxidase antagonists & inhibitors, L-Amino Acid Oxidase genetics, L-Amino Acid Oxidase metabolism, Lectins, C-Type antagonists & inhibitors, Lectins, C-Type genetics, Lectins, C-Type isolation & purification, Lectins, C-Type metabolism, Membrane Glycoproteins antagonists & inhibitors, Membrane Glycoproteins genetics, Membrane Glycoproteins isolation & purification, Membrane Glycoproteins metabolism, Metalloproteases antagonists & inhibitors, Metalloproteases genetics, Metalloproteases metabolism, Phenotype, Phospholipases A2 genetics, Phospholipases A2 isolation & purification, Phospholipases A2 metabolism, Phosphoric Diester Hydrolases genetics, Phosphoric Diester Hydrolases metabolism, Phylogeny, Proteolysis, Serine Proteases genetics, Serine Proteases metabolism, Trimeresurus genetics, Crotalid Venoms chemistry, L-Amino Acid Oxidase isolation & purification, Metalloproteases isolation & purification, Phosphoric Diester Hydrolases isolation & purification, Serine Proteases isolation & purification, Trimeresurus metabolism
- Abstract
The genus Trimeresurus comprises a group of venomous pitvipers endemic to Southeast Asia and the Pacific Islands. Of these, Trimeresurus insularis, the White-lipped Island Pitviper, is a nocturnal, arboreal species that occurs on nearly every major island of the Lesser Sunda archipelago. In the current study, venom phenotypic characteristics of T. insularis sampled from eight Lesser Sunda Islands (Flores, Lembata, Lombok, Pantar, Sumba, Sumbawa, Timor, and Wetar) were evaluated via SDS-PAGE, enzymatic activity assays, fibrinogenolytic assays, gelatin zymography, and RP-HPLC, and the Sumbawa sample was characterized by venomic analysis. For additional comparative analyses, venoms were also examined from several species in the Trimeresurus complex, including T. borneensis, T. gramineus, T. puniceus, T. purpureomaculatus, T. stejnegeri, and Protobothrops flavoviridis. Despite the geographical isolation, T. insularis venoms from all eight islands demonstrated remarkable similarities in gel electrophoretic profiles and RP-HPLC patterns, and all populations had protein bands in the mass ranges of phosphodiesterases (PDE), l-amino acid oxidases (LAAO), P-III snake venom metalloproteinases (SVMP), serine proteases, cysteine-rich secretory proteins (CRISP), phospholipases A
2 (PLA2 ), and C-type lectins. An exception was observed in the Lombok sample, which lacked protein bands in the mass range of serine protease and CRISP. Venomic analysis of the Sumbawa venom also identified these protein families, in addition to several proteins of lesser abundance (<1%), including glutaminyl cyclase, aminopeptidase, PLA2 inhibitor, phospholipase B, cobra venom factor, 5'-nucleotidase, vascular endothelial growth factor, and hyaluronidase. All T. insularis venoms exhibited similarities in thrombin-like and PDE activities, while significant differences were observed for LAAO, SVMP, and kallikrein-like activities, though these differences were only observed for a few islands. Slight but noticeable differences were also observed with fibrinogen and gelatin digestion activities. Trimeresurus insularis venoms exhibited overall similarity to the other Trimeresurus complex species examined, with the exception of P. flavoviridis venom, which showed the greatest overall differentiation. Western blot analysis revealed that all major T. insularis venom proteins were recognized by Green Pitviper ( T. albolabris) antivenom, and reactivity was also seen with most venom proteins of the other Trimeresurus species, but incomplete antivenom-venom recognition was observed against P. flavoviridis venom proteins. These results demonstrate significant conservation in the venom composition of T. insularis across the Lesser Sunda archipelago relative to the other Trimeresurus species examined.- Published
- 2019
- Full Text
- View/download PDF
33. Impact of direct-acting antivirals on leukocytic DNA telomere length in hepatitis C virus-related hepatic cirrhosis.
- Author
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Demerdash HM, Elyamany AS, and Arida E
- Subjects
- Adult, Antiviral Agents therapeutic use, Case-Control Studies, Female, Hepatitis C, Chronic complications, Hepatitis C, Chronic genetics, Humans, Leukocytes drug effects, Liver Cirrhosis genetics, Liver Cirrhosis virology, Male, Middle Aged, Telomere drug effects, Antiviral Agents pharmacology, Hepatitis C, Chronic drug therapy, Liver Cirrhosis drug therapy, Telomere Shortening drug effects
- Abstract
Background: Direct-acting antiviral (DAAs) represent advancement in the management of hepatitis C virus (HCV)-related hepatic cirrhosis. A high proportion of patients achieve a sustained virologic response; eradication of HCV is coupled with a decreased risk of hepatocellular carcinoma. Recent evidence suggests that shortening of the DNA telomere may be linked to cellular senescence as well as predisposition to malignant transformation., Objective: This study aimed to assess pretreatment leukocytic DNA telomere length in HCV-related cirrhosis and post viral eradication using DAAs., Patients and Methods: This study included 24 patients with HCV-related cirrhosis, Child-Pugh A. Whole-blood samples were obtained from patients before treatment and 12 weeks after the end of treatment, as well as from 24 healthy controls. Terminal restriction fragment, corresponding to telomere length, was measured using a nonradioactive Southern blot technique, detected by chemiluminescence., Results: DNA telomere length was significantly shorter before treatment compared with 12 weeks after end of treatment in HCV-related cirrhotic patients. Also, it was significantly shorter in patients before treatment compared with healthy individuals., Conclusion: Telomere elongation in blood leukocytes can be considered a marker of recovery of inflammation after DAAs-induced HCV eradication. Still, the possibility of activation by cancer initiation cannot be excluded.
- Published
- 2019
- Full Text
- View/download PDF
34. Cyrtodactylus tahuna sp. nov., a new bent-toed gecko (Reptilia: Squamata: Gekkonidae) from Sangihe Island, North Sulawesi, Indonesia.
- Author
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Riyanto A, Arida E, and Koch A
- Subjects
- Animal Distribution, Animal Structures, Animals, Biodiversity, Bufonidae, Female, Indonesia, Islands, Male, Lizards
- Abstract
Cyrtodactylus tahuna sp. nov. is a new bent-toed gecko we describe herein based on three specimens from Sangihe, North Sulawesi, Indonesia, an island situated in the northern corner of the Wallacea biodiversity hotspot. The new species is a medium sized Cyrtodactylus with a SVL of up to 78.5 mm in adult males and 79.2 mm in females. It is easily distinguished from all but four species (Cyrtodactylus fumosus, C. halmahericus, C. papuensis, and C. tambora) occurring on Sulawesi as well as in the Moluccas and the Lesser Sunda Islands, by possessing precloacal and femoral pores, enlarged precloacal and femoral scales, and lacking transversely enlarged median subcaudal scales. It differs from C. fumosus by the presence of tubercles on the ventrolateral fold, more unkeeled dorsal tubercles (19 versus 4-7) and a pit-like precloacal depression in males (versus groove in males); from C. halmahericus by presence of smaller scales between the enlarged precloacal and femoral scales (versus a continuous series of enlarged precloacofemoral scales) and a continuous series of precloacofemoral pores, as well as the presence of a pit-like precloacal depression in male (versus groove in males), from C. papuensis by possessing a pit-like precloacal depression in males (versus a groove ); and from C. tambora by the presence of tubercles on the dorsal surface of the brachium and the possession of femoral pores. Our contribution, along with several other recent descriptions of bent-toad geckos from Southeast Asia, clearly indicating that the diversity of the genus Cyrtodactylus in Indonesia is still underestimated.
- Published
- 2018
- Full Text
- View/download PDF
35. Squeezing water from a stone: high-throughput sequencing from a 145-year old holotype resolves (barely) a cryptic species problem in flying lizards.
- Author
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McGuire JA, Cotoras DD, O'Connell B, Lawalata SZS, Wang-Claypool CY, Stubbs A, Huang X, Wogan GOU, Hykin SM, Reilly SB, Bi K, Riyanto A, Arida E, Smith LL, Milne H, Streicher JW, and Iskandar DT
- Abstract
We used Massively Parallel High-Throughput Sequencing to obtain genetic data from a 145-year old holotype specimen of the flying lizard, Draco cristatellus . Obtaining genetic data from this holotype was necessary to resolve an otherwise intractable taxonomic problem involving the status of this species relative to closely related sympatric Draco species that cannot otherwise be distinguished from one another on the basis of museum specimens. Initial analyses suggested that the DNA present in the holotype sample was so degraded as to be unusable for sequencing. However, we used a specialized extraction procedure developed for highly degraded ancient DNA samples and MiSeq shotgun sequencing to obtain just enough low-coverage mitochondrial DNA (721 base pairs) to conclusively resolve the species status of the holotype as well as a second known specimen of this species. The holotype was prepared before the advent of formalin-fixation and therefore was most likely originally fixed with ethanol and never exposed to formalin. Whereas conventional wisdom suggests that formalin-fixed samples should be the most challenging for DNA sequencing, we propose that evaporation during long-term alcohol storage and consequent water-exposure may subject older ethanol-fixed museum specimens to hydrolytic damage. If so, this may pose an even greater challenge for sequencing efforts involving historical samples., Competing Interests: The authors declare there are no competing interests.
- Published
- 2018
- Full Text
- View/download PDF
36. Toxic toad invasion of Wallacea: A biodiversity hotspot characterized by extraordinary endemism.
- Author
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Reilly SB, Wogan GOU, Stubbs AL, Arida E, Iskandar DT, and McGuire JA
- Subjects
- Animals, Lizards physiology, Pacific Islands, Animal Distribution, Biodiversity, Bufonidae physiology, Introduced Species
- Abstract
(a) A map of Wallacea showing islands invaded by Duttaphrynus melanostictus in red, islands inhabited by Varanus komodoensis in blue, and localities of genetic samples in yellow points. (b) A D. melanostictus from Lombok Island. (c) Environmental niche model for the Sunda Islands clade of D. melanostictus projected into Wallacea. Green color indicates very high suitability, yellow color indicates high suitability, and orange color indicates moderate suitability., (© 2017 John Wiley & Sons Ltd.)
- Published
- 2017
- Full Text
- View/download PDF
37. A new species of Lepidodactylus (Reptilia: Squamata: Gekkonidae) from the Kei Islands, Maluku, Indonesia.
- Author
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Stubbs AL, Karin BR, Arifin U, Iskandar DT, Arida E, Reilly SB, Bloch LM, Kusnadi A, and McGuire JA
- Subjects
- Animal Distribution, Animal Structures, Animals, Body Size, Indonesia, Islands, Palau, Phylogeny, Lizards
- Abstract
Lepidodactylus pantai is a new species of gecko from the Kei Islands, Maluku, Indonesia that is closely associated with intertidal habitats. This species does not fit cleanly into any of the three species groups described for the genus because it possesses the unique combination of both divided terminal scansors on all toes and a nearly completely cylindrical tail without fringes or evidence of dorsoventral compression. A phylogenetic analysis including this species demonstrates that it is the sister taxon of a population from Palau, and that this clade is sister to the clade containing Group III species for which we have molecular data.
- Published
- 2017
- Full Text
- View/download PDF
38. EVY ARIDA & SRI CATUR SETYAWATININGSIH (2015) On the occurrence of Varanus nebulosus (Gray, 1831) (Squamata: Varanidae) on Riau Archipelago, Indonesia. Zootaxa, 3919 (1): 197-200.
- Author
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Arida E and Setyawatiningsih SC
- Published
- 2015
- Full Text
- View/download PDF
39. On the occurrence of Varanus nebulosus (Gray, 1831) (Squamata: Varanidae) on Riau Archipelago, Indonesia.
- Author
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Arida E and Setyawatiningsih SC
- Subjects
- Animals, Indonesia, Lizards anatomy & histology, Male, Lizards classification
- Published
- 2015
- Full Text
- View/download PDF
40. Nephrobronchial fistula: resulting from perinephric abscess.
- Author
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Arida EJ and Verderame V
- Subjects
- Female, Humans, Kidney Diseases complications, Middle Aged, Abscess complications, Bronchial Fistula etiology, Kidney Diseases etiology, Urinary Fistula etiology
- Published
- 1977
41. Collateral pathways occurring in simultaneous obstruction of the superior and inferior venae cavae.
- Author
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Alaguraj T, Arida EJ, and Mooken TT
- Subjects
- Azygos Vein physiopathology, Humans, Male, Middle Aged, Thrombophlebitis diagnosis, Ultrasonography, Collateral Circulation, Thrombophlebitis physiopathology, Venae Cavae pathology
- Abstract
The authors report a rare case of angiographically demonstrated simultaneous obstruction of both venae cavae. The case serves to illustrate an interesting and relatively unique mesenteric portal venous mechanism which became effective as a joint collateral pathway for both regions.
- Published
- 1983
- Full Text
- View/download PDF
42. Arthrography of the knee using remote-control fluororadiography.
- Author
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Arida EJ and Mooken TT
- Subjects
- Fluoroscopy instrumentation, Humans, Ligaments, Articular diagnostic imaging, Menisci, Tibial diagnostic imaging, Telemetry, Television, Fluoroscopy methods, Knee Joint diagnostic imaging
- Published
- 1980
- Full Text
- View/download PDF
43. The association of neurofibromatosis and hyperparathyroidism.
- Author
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Chakrabarti S, Murugesan A, and Arida EJ
- Subjects
- Adenoma complications, Aged, Bone Neoplasms complications, Calcaneus, Female, Humans, Hypercalcemia complications, Middle Aged, Neurilemmoma complications, Nevus complications, Parathyroid Neoplasms complications, Pigmentation Disorders complications, Scoliosis complications, Skin Neoplasms complications, Urinary Calculi complications, Hyperparathyroidism complications, Neurofibromatosis 1 complications
- Abstract
Two patients with coexisting neurofibromatosis and hyperparathyroidism are described, bringing the total number of such cases in the world literature to seven. Other more classic examples of the association of tumorous conditions of neuroectodermal and entodermal origin are discussed to support the suggestion that the association of these two diseases may be another variant of multiple endocrine neoplasia type 2 (MEN2b). It may be clinically profitable to investigate all patients with either disease in order to uncover their coexistence.
- Published
- 1979
- Full Text
- View/download PDF
44. Splenic arteriovenous fistula with portal hypertension, varices, and ascites.
- Author
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Arida EJ
- Subjects
- Aged, Esophageal and Gastric Varices etiology, Female, Humans, Arteriovenous Fistula complications, Ascites etiology, Hypertension, Portal etiology, Splenic Artery, Splenic Vein
- Published
- 1977
45. Cerebral cysticercosis with aqueductal obstruction. Case report.
- Author
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Poon TP, Arida EJ, and Tyschenko WP
- Subjects
- Acute Disease, Adult, Brain Diseases diagnostic imaging, Brain Diseases pathology, Calcinosis etiology, Cysticercosis diagnostic imaging, Cysticercosis pathology, Female, Humans, Radiography, Brain pathology, Brain Diseases complications, Cerebral Aqueduct, Cysticercosis complications, Hydrocephalus etiology
- Abstract
The authors report a case of cerebral cysticercosis which presented with generalized nonspecific neurological signs and symptoms attributed to acute aqueductal obstruction, with concomitant intracranial hypertension. These were characteristic intracranial calcifications along with angiographically demonstrated signs of hydrocephalus. Contrast encephalography clearly demonstrated aqueductal obstruction. Pathologically, the aqueductal obstruction was shown to be due to parasitic invasion of the brain stem with compression of the aqueduct. The presence of typical intracranial calcification in conjunction with either obstructive or normal-pressure hydrocephalus should alert the observer to the possibility of cerebral cysticercosis.
- Published
- 1980
- Full Text
- View/download PDF
46. Variation of leukocyte neuraminidase with Duke stage in patients with adenocarcinoma of the colon and rectum.
- Author
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Arida EN
- Subjects
- Adenocarcinoma pathology, Aged, Biopsy, Cell Line, Colonic Neoplasms pathology, Female, Humans, Male, Middle Aged, Neoplasm Staging, Neuraminidase immunology, Rectal Neoplasms pathology, Adenocarcinoma enzymology, Colonic Neoplasms enzymology, Leukocytes enzymology, Neuraminidase metabolism, Rectal Neoplasms enzymology
- Abstract
In 14 patients with adenocarcinoma of the colon or rectum (Duke stages A to D), positive results for neuraminidase were obtained with the isolated leukocytes at pH 6. These were tested by a cytochemical method using a chromogenic substrate for neuraminidase. Under the same conditions, normal leukocyte neuraminidase has a pH optimum of 4. The percentage of leukocytes showing neuraminidase activity increased with the progression of Duke stage and presence of liver or peritoneal metastases. Neuraminidase activity was also found in tumor and metastases specimens of these patients as well as in a human cell line derived from colonic adenocarcinoma (HT-29). Neuraminidase antibodies were found in blood and certain tumor materials. Neuraminidase inhibition tests were positive with neuraminidase inhibitors, patients' sera, N2 neuraminidase antibodies, and antisera against some type C retroviruses (GaLV and MLV), which were used because highly purified MLV preparations proved to contain biologically active neuraminidase (N2).
- Published
- 1988
47. The renal arteries. An evaluation of roentgen methods of opacification.
- Author
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HEMLEY SD, ARIDA EJ, and RING EM
- Subjects
- Humans, Angiography, Renal Artery diagnostic imaging
- Published
- 1961
- Full Text
- View/download PDF
48. Occult lesions discovered during anticoagulant therapy.
- Author
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HEMLEY SD, ARIDA EJ, and SCHWARTZ MJ
- Subjects
- Anticoagulants therapy, Hemorrhage, Medical Records, Neoplasms, Thromboembolism therapy
- Published
- 1961
- Full Text
- View/download PDF
49. An observation on the aortic bifurcation pertinent to femoral artery catheterisation.
- Author
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HEMLEY SD, ARIDA EJ, and FINBY N
- Subjects
- Humans, Aorta, Abdominal, Arteries, Catheterization, Femoral Artery, Femur, Iliac Artery anatomy & histology
- Published
- 1962
- Full Text
- View/download PDF
50. The role of angiocardiography in myxedema heart disease.
- Author
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KITTREDGE RD, ARIDA EJ, and FINBY N
- Subjects
- Humans, Heart Diseases, Myxedema
- Published
- 1963
- Full Text
- View/download PDF
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