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Tropical rainforests are considered as hotspots for bird diversity, yet little is known about the system that upholds the coexistence of species. Differences in body size that are associated with foraging strategies and spatial distribution are believed to promote the coexistence of closely related species by reducing competition. However, the fact that many babbler species do not differ significantly in their morphology has challenged this view. We studied the foraging ecology of nine sympatric babbler species (i.e., Pellorneum capistratum, P. bicolor, P. malaccense, Malacopteron cinereum, M. magnum, Stachyris nigriceps, S. nigricollis, S. maculata, and Cyanoderma erythropterum) in the Krau Wildlife Reserve in Peninsular Malaysia. We investigated; i) how these babblers forage in the wild and use vegetation to obtain food, and ii) how these trophically similar species differ in spatial distribution and foraging tactics. Results indicated that most babblers foraged predominantly on aerial leaf litter and used gleaning manoeuvre in intermediate-density foliage but exhibited wide ranges of vertical strata usage, thus reducing interspecific competition. The principal component analysis indicated that two components, i.e., foraging height and substrate are important as mechanisms to allow the coexistence of sympatric babblers. The present findings revealed that these bird species have unique foraging niches that are distinct from each other, and this may apply to other insectivorous birds inhabiting tropical forests. This suggests that niche separation does occur among coexisting birds, thus following Gause' law of competitive exclusion, which states two species occupying the same niche will not stably coexist.

An arboreal ant species by nature, the Asian weaver ant Oecophylla smaragdina F., (Hymenoptera: Formicidae) colony’s social structure composition was investigated in depth. Brood and barrack nests were collected from the African oil palm ( Elaeis guineensis ) canopies and Limau kasturi ( Citrus microcarpa ) orchards, and dissected. All caste’s morphological traits were examined stereo-microscopically. The workers’ width and length measurements of the separately dissected head, thorax, frontal view, abdomen, and body full side view sizes were recorded. All colonies comprise a founding queen laying thousands of eggs stored in a protective yellowish, unknown sticky substance (shining reflection), with reproductive winged green and newly emerged yellow queens, adult drone males, and wingless workers along their immature pupae and larvae arranged in woven, solid silken chambers (brood nests exclusively). Besides the traditionally known caste of minor and major workers, five polymorphic individuals comprising two unidentified novel sub-castes of intermediate workers and one sub-caste of major workers were described. The full body and abdomen lengths are proposed as dominant predicting factors differentiating among the five sub-castes. The discovery of a multimodal size frequency distribution model contrasts with the classical archetypical bimodal systems in ants. Intermediate workers foraging outside the nest revealed reconnaissance autonomy and aggressive behaviors that aided larger workers in securing the territorial perimeter. Bigger workers occupied the first defensive layers of the colony’s territorial frontier, while the intermediate workers maintained their stance at a closer nest distance. Major workers systematically acted as leaders-supervisors by removing individuals of smaller size during overheating exposure. Due to their short lifespan and segregated nests, it is difficult to collect adult males in wide plantations. A stable and average mature three-year-old colony produces several reproductive individuals monthly. The mean number of emerging queens is higher in older colonies (scarcity of males) and lower for younger colonies (queens-males averages are correlated). The queen production increases with higher rainfall and relative humidity. This study identified three novel worker sub-castes: one major intermediate, two intermediate in size. These findings contribute to a better understanding of the overall worker’s functional activity. The Asian weaver ant demonstrates adaptive measures in response to challenging abiotic factors (temperature), defying classical labor division rules.

A study was conducted to investigate the relationship between the physical morphology of shorebirds and water birds (i.e., Lesser adjutant (Leptoptilos javanicus), Common redshank (Tringa totanus), Whimbrel (Numenius phaeopus), and Little heron (Butorides striata)) and their foraging behavior in the mudflats area of Selangor, Peninsular Malaysia, from August 2013 to July 2014 by using direct observation techniques (using binoculars and a video recorder). The actively foraging bird species were watched, and their foraging activities were recorded for at least 30 seconds for up to a maximum of five minutes. A Spearman Rank Correlation highlighted a significant relationship between bill size and foraging time (R=0.443, p<0.05), bill size and prey size (R=-0.052, p<0.05), bill size and probing depth (R=0.42, p=0.003), and leg length and water/mud depth (R=0.706, p<0.005). A Kruskal-Wallis Analysis showed a significant difference between average estimates of real probing depth of the birds (mm) and species (H=15.96, p=0.0012). Three foraging techniques were recorded: pause-travel, visual-feeding, and tactile-hunting. Thus, morphological characteristics of bird do influence their foraging behavior and strategies used when foraging.

Several published checklists of bat species have covered Peninsular Malaysia as part of a broader region and/or in combination with other mammal groups. Other researchers have produced comprehensive checklists for specific localities within the peninsula. To our knowledge, a comprehensive checklist of bats specifically for the entire geopolitical region of Peninsular Malaysia has never been published, yet knowing which species are present in Peninsular Malaysia and their distributions across the region are crucial in developing suitable conservation plans. Our literature search revealed that 110 bat species have been documented in Peninsular Malaysia; 105 species have precise locality records while five species lack recent and/or precise locality records. We retrieved 18 species from records dated before the year 2000 and seven species have only ever been recorded once. Our search of Barcode of Life Datasystems (BOLD) found that 86 (of the 110) species have public records of which 48 species have public DNA barcodes available from bats sampled in Peninsular Malaysia. Based on Neighbour-Joining tree analyses and the allocation of DNA barcodes to Barcode Index Number system (BINs) by BOLD, several DNA barcodes recorded under the same species name are likely to represent distinct taxa. We discuss these cases in detail and highlight the importance of further surveys to determine the occurences and resolve the taxonomy of particular bat species in Peninsular Malaysia, with implications for conservation priorities.

Intense landscaping often alters the plant composition in urban areas. Knowing which plant species that pollinators are visiting in urban areas is necessary for understanding how landscaping impacts biodiversity and associated ecosystem services. The cave nectar bat, , is an important pollinator for many plants and is often recorded in human-dominated habitats. Previous studies of the diet of relied on morphological identification of pollen grains found in faeces and on the body of bats and by necessity disregarded other forms of digested plant material present in the faeces (i.e., plant juice and remnants). The main objective of this study was to examine the diet of the nectarivorous bat, roosting in an urban cave at Batu Caves, Peninsular Malaysia by identifying the plant material present in the faeces of bats using DNA metabarcoding. Faeces were collected under the roost of once a week from December 2015 to March 2016. Plant DNA was extracted from the faeces, Polymerase chain reaction (PCR) amplified at and regions and mass sequenced. The resultant plant operational taxonomic units were searched against NCBI GenBank for identification. A total of 55 species of plants were detected from faeces of including and spp. which are likely to be important food resources for the cave nectar bat. Many native plant species that had not been reported in previous dietary studies of were detected in this study including and , suggesting that remains a crucial pollinator for these plants even in highly disturbed habitats. The detection of many introduced plant species in the bat faeces indicates that are exploiting them, particularly as food resources in urban area. Commercial food crops were detected from all of the faecal samples, suggesting that feed predominantly on the crops particularly jackfruit and banana and play a significant role in pollination of economically important plants. Ferns and figs were also detected in the faeces of suggesting future research avenues to determine whether the 'specialised nectarivorous' feed opportunistically on other parts of plants.

Background The genus Onchocerca Diesing, 1841 includes species of medical importance, such as O. volvulus (Leuckart, 1893), which causes river blindness in the tropics. Recently, zoonotic onchocercosis has been reported in humans worldwide. In Japan, O. dewittei japonica Uni, Bain & Takaoka, 2001 from wild boars is a causative agent for this zoonosis. Many filarioid nematodes are infected with Wolbachia endosymbionts which exhibit various evolutionary relationships with their hosts. While investigating the filarial fauna of Borneo, we discovered an undescribed Onchocerca species in the bearded pig Sus barbatus Müller (Cetartiodactyla: Suidae). Methods We isolated Onchocerca specimens from bearded pigs and examined their morphology. For comparative material, we collected fresh specimens of O. d. dewittei Bain, Ramachandran, Petter & Mak, 1977 from banded pigs ( S. scrofa vittatus Boie) in Peninsular Malaysia. Partial sequences of three different genes (two mitochondrial genes, cox 1 and 12S rRNA, and one nuclear ITS region) of these filarioids were analysed. By multi-locus sequence analyses based on six genes ( 16S rDNA, ftsZ , dnaA , coxA , fbpA and gatB ) of Wolbachia , we determined the supergroups in the specimens from bearded pigs and those of O. d. dewittei . Results Onchocerca borneensis Uni, Mat Udin & Takaoka n. sp. is described on the basis of morphological characteristics and its genetic divergence from congeners. Molecular characteristics of the new species revealed its close evolutionary relationship with O. d. dewittei . Calculated p-distance for the cox 1 gene sequences between O. borneensis n. sp. and O. d. dewittei was 5.9%, while that between O. d. dewittei and O. d. japonica was 7.6%. No intraspecific genetic variation was found for the new species. Wolbachia strains identified in the new species and O. d. dewittei belonged to supergroup C and are closely related. Conclusions Our molecular analyses of filarioids from Asian suids indicate that the new species is sister to O. d. dewittei . On the basis of its morphological and molecular characteristics, we propose to elevate O. d. japonica to species level as O. japonica Uni, Bain & Takaoka, 2001. Coevolutionary relationships exist between the Wolbachia strains and their filarial hosts in Borneo and Peninsular Malaysia.

BACKGROUND: Zoonotic infections with Onchocerca species are uncommon, and to date only 25 clinical cases have been reported worldwide. In Japan, five previous zoonotic infections were concentrated in Oita, Kyushu (the southern island), with one previous case in Hiroshima in the western part of Honshu (the main island). The causative agent in Japan was identified as Onchocerca dewittei japonica Uni, Bain & Takaoka, 2001 from Japanese wild boars (Sus scrofa leucomystax Temminck, 1842). Here we report two infections caused by a female and male O. dewittei japonica, respectively, among residents of Hiroshima and Shimane Prefectures in the western part of Honshu. METHODS: In both cases, nodules were surgically removed. The parasites in nodules were identified on the basis of their histopathological characteristics. Identification was confirmed by sequencing the mitochondrial cytochrome c oxidase subunit 1 (cox1) gene from worms in the tissues used in the histological preparations. RESULTS: Case 1 was a 61-year-old woman from Hiroshima Prefecture who complained of a painful subcutaneous nodule on the back of her right hand. The causative agent was identified as a female O. dewittei japonica owing to transverse ridges on the cuticle and molecular analysis. Case 2 was a 78-year-old woman from Shimane Prefecture who had a painful nodule in the left temporal region. Histopathological characteristics and cox1 sequencing of the worm indicated that the causative agent was a male O. dewittei japonica. CONCLUSIONS: For Cases 1 and 2, we diagnosed the causative agents as a female and male O. dewittei japonica, respectively. These findings indicate the spread of a zoonosis caused by O. dewittei japonica in the western part of Honshu, where wild boars have recently extended their habitats because of decreased annual snowfall, unused rice fields and a decline in the number of hunters in Japan. The O. dewittei japonica infection rate among wild boars was reported as 78% in Shimane Prefecture, in the western part of Honshu. Therefore, in the near future, zoonotic onchocercosis is likely to occur in Honshu as well as Kyushu, where wild boars, blackfly vectors and humans share the same habitat.

A comparative study of understorey birds inhabiting different habitats, that is, virgin jungle reserve (VJR) and regenerated forest (RF), was conducted in Ulu Gombak Forest Reserve and Selangor and Triang Forest Reserve, Negeri Sembilan, Peninsular Malaysia. The objective of this study was to assess the diversity of understorey birds in both habitats and the effects of forest regeneration on the understorey bird community. The mist-netting method was used to capture understorey birds inhabiting both habitats in both locations. Species composition and feeding guild indicated that understorey bird populations were similar in the two habitats. However, the number of secondary forest species such as Little spiderhunter (Arachnothera longirostra) in VJR is increasing due to its proximity to RF. This study discovered that RFs in both study areas are not yet fully recovered. However, based on the range of species discovered, the RFs have conservation value and should be maintained because they harbour important forest species such as babblers and flycatchers. The assessment of the community structure of understorey birds in VJR and RF is important for forest management and conservation, especially where both habitats are intact.

Background The filarial nematodes Wuchereria bancrofti (Cobbold, 1877), Brugia malayi (Brug, 1927) and B. timori Partono, Purnomo, Dennis, Atmosoedjono, Oemijati & Cross, 1977 cause lymphatic diseases in humans in the tropics, while B. pahangi (Buckley & Edeson, 1956) infects carnivores and causes zoonotic diseases in humans in Malaysia. Wuchereria bancrofti , W. kalimantani Palmieri, Pulnomo, Dennis & Marwoto, 1980 and six out of ten Brugia spp. have been described from Australia, Southeast Asia, Sri Lanka and India. However, the origin and evolution of the species in the Wuchereria-Brugia clade remain unclear. While investigating the diversity of filarial parasites in Malaysia, we discovered an undescribed species in the common treeshrew Tupaia glis Diard & Duvaucel (Mammalia: Scandentia). Methods We examined 81 common treeshrews from 14 areas in nine states and the Federal Territory of Peninsular Malaysia for filarial parasites. Once any filariae that were found had been isolated, we examined their morphological characteristics and determined the partial sequences of their mitochondrial cytochrome c oxidase subunit 1 ( cox 1) and 12S rRNA genes. Polymerase chain reaction (PCR) products of the internal transcribed spacer 1 (ITS1) region were then cloned into the pGEM-T vector, and the recombinant plasmids were used as templates for sequencing. Results Malayfilaria sofiani Uni, Mat Udin & Takaoka, n. g., n. sp. is described based on the morphological characteristics of adults and microfilariae found in common treeshrews from Jeram Pasu, Kelantan, Malaysia. The Kimura 2-parameter distance between the cox 1 gene sequences of the new species and W. bancrofti was 11.8%. Based on the three gene sequences, the new species forms a monophyletic clade with W. bancrofti and Brugia spp. The adult parasites were found in tissues surrounding the lymph nodes of the neck of common treeshrews. Conclusions The newly described species appears most closely related to Wuchereria spp. and Brugia spp., but differs from these in several morphological characteristics. Molecular analyses based on the cox 1 and 12S rRNA genes and the ITS1 region indicated that this species differs from both W. bancrofti and Brugia spp. at the genus level. We thus propose a new genus, Malayfilaria , along with the new species M. sofiani .

Background Taxonomists frequently identify specimen from various populations based on the morphological characteristics and molecular data. This study looks into another invasive process in identification of house shrew ( Suncus murinus ) using image analysis and machine learning approaches. Thus, an automated identification system is developed to assist and simplify this task. In this study, seven descriptors namely area, convex area, major axis length, minor axis length, perimeter, equivalent diameter and extent which are based on the shape are used as features to represent digital image of skull that consists of dorsal, lateral and jaw views for each specimen. An Artificial Neural Network (ANN) is used as classifier to classify the skulls of S. murinus based on region (northern and southern populations of Peninsular Malaysia) and sex (adult male and female). Thus, specimen classification using Training data set and identification using Testing data set were performed through two stages of ANNs. Results At present, the classifier used has achieved an accuracy of 100% based on skulls’ views. Classification and identification to regions and sexes have also attained 72.5%, 87.5% and 80.0% of accuracy for dorsal, lateral, and jaw views, respectively. This results show that the shape characteristic features used are substantial because they can differentiate the specimens based on regions and sexes up to the accuracy of 80% and above. Finally, an application was developed and can be used for the scientific community. Conclusions This automated system demonstrates the practicability of using computer-assisted systems in providing interesting alternative approach for quick and easy identification of unknown species.