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Genetic diversity and structure of the critically endangered Artocarpus annulatus, a crop wild relative of jackfruit (A. heterophyllus)

Dickinson L, Noble H, Gardner E, Puad ASA, Zakaria WNFW, Zerega NJC

PeerJ, 2020;8:e9897.
PMID: 33005490 DOI: 10.7717/peerj.9897

Limestone karsts of Southeast Asia can harbor high levels of endemism, but are highly fragmented, increasingly threatened, and their biodiversity is often poorly studied. This is true of the Padawan Limestone Area of Sarawak, Malaysia, home to the endemic Artocarpus annulatus, the closest known wild relative of two important and underutilized fruit tree crops, jackfruit (A. heterophyllus) and cempedak (A. integer). Identifying and conserving crop wild relatives is critical for the conservation of crop genetic diversity and breeding. In 2016 and 2017, five A. annulatus populations were located, and leaf material, locality information, and demographic data were collected. Microsatellite markers were used to assess genetic diversity and structure among populations, and to compare levels of genetic diversity to closely related congeneric species. Results indicate no evidence of inbreeding in A. annulatus, and there is no genetic structure among the five populations. However, diversity measures trended lower in seedlings compared to mature trees, suggesting allelic diversity may be under threat in the youngest generation of plants. Also, genetic diversity is lower in A. annulatus compared to closely related congeners. The present study provides a baseline estimate of A. annulatus genetic diversity that can be used for comparison in future studies and to other species in the unique limestone karst ecosystems. Considerations for in situ and ex situ conservation approaches are discussed.

Matched MeSH terms: Biodiversity
Fulltext Persistent mosquito fogging can be detrimental to non-target invertebrates in an urban tropical forest

Lee NSM, Clements GR, Ting ASY, Wong ZH, Yek SH

PeerJ, 2020;8:e10033.
PMID: 33062440 DOI: 10.7717/peerj.10033

Background: Human population growth has led to biodiversity declines in tropical cities. While habitat loss and fragmentation have been the main drivers of urban biodiversity loss, man-made interventions to reduce health risks have also emerged as an unintentional threat. For instance, insecticide fogging to control mosquito populations has become the most common method of preventing the expansion of mosquito-borne diseases such as Dengue. However, the effectiveness of fogging in killing mosquitoes has been called into question. One concern is the unintended effect of insecticide fogging on non-target invertebrates that are crucial for the maintenance of urban ecosystems. Here, we investigate the impacts of fogging on: (1) target invertebrate taxon (Diptera, including mosquitoes); (2) non-target invertebrate taxa; and (3) the foraging behavior of an invertebrate pollinator taxon (Lepidoptera) within an urban tropical forest.
Methods: We carried out fogging with Pyrethroid insecticide (Detral 2.5 EC) at 10 different sites in a forest situated in the state of Selangor, Peninsular Malaysia. Across the sites, we counted the numbers of knocked-down invertebrates and identified them based on morphology to different taxa. We constructed Bayesian hierarchical Poisson regression models to investigate the effects of fogging on: (1) a target invertebrate taxon (Diptera) 3-h post-fogging; (2) selected non-target invertebrate taxa 3-h post-fogging; and (3) an invertebrate pollinator taxon (Lepidoptera) 24-h post-fogging.
Results: A total of 1,874 invertebrates from 19 invertebrate orders were knocked down by the fogging treatment across the 10 sites. Furthermore, 72.7% of the invertebrates counted 3-h post-fogging was considered dead. Our regression models showed that given the data and prior information, the probability that fogging had a negative effect on invertebrate taxa 3-h post-fogging was 100%, with reductions to 11% of the pre-fogging count of live individuals for the target invertebrate taxon (Diptera), and between 5% and 58% of the pre-fogging count of live individuals for non-target invertebrate taxa. For the invertebrate pollinator, the probability that fogging had a negative effect 24-h post-fogging was also 100%, with reductions to 53% of the pre-fogging count of live individuals.
Discussion: Our Bayesian models unequivocally demonstrate that fogging has detrimental effects on one pollinator order and non-target invertebrate orders, especially taxa that have comparatively lower levels of chitinisation. While fogging is effective in killing the target order (Diptera), no mosquitos were found dead in our experiment. In order to maintain urban biodiversity, we recommend that health authorities and the private sector move away from persistent insecticide fogging and to explore alternative measures to control adult mosquito populations.

Matched MeSH terms: Biodiversity
Fulltext Physiological implications of life at the forest interface of oil palm agriculture: blood profiles of wild Malay civets (Viverra tangalunga)

Evans MN, Guerrero-Sanchez S, Kille P, Müller CT, Bakar MSA, Goossens B

Conserv Physiol, 2020;8(1):coaa127.
PMID: 33408869 DOI: 10.1093/conphys/coaa127

Agricultural development is a major threat to global biodiversity, and effective conservation actions are crucial. Physiological repercussions of life alongside human-modified landscapes can undermine adaptable species' health and population viability; however, baseline data are lacking for many wildlife species. We assessed the physiological status of a generalist carnivore, the Malay civet (Viverra tangalunga), persisting within an extensively human-modified system in Sabah, Malaysian Borneo. We characterized hematology and serum biochemistry panels from civets sampled across a mosaic landscape comprising tropical forest fragments and oil palm plantations. Intra-population variation in certain blood parameters were explained by expected biological drivers such as sex, age category and sampling season. Furthermore, we determined several erythrocyte measures, immune cell counts and dietary biochemistry markers significantly varied with proximity to oil palm plantation boundaries. These findings were supported by a case study, whereby blood profiles of GPS collared male civets were contrasted based on their exclusive use of forests or use of oil palm plantations. These data provide robust and valuable first insights into this species' physiological status and suggest agricultural landscapes are impacting the persisting population.

Matched MeSH terms: Biodiversity
Effects Of Biotic Interactions, Abiotic Environments And Harvesting On The Spread Of Hantavirus Infection

Fauzi Mohamed Yusof, Mohd Hafiz Mohd, Yazariah Mohd Yatim, Ahmad Izani Md. Ismail

MATEMATIKA, 2020;36(1):1-14.
MyJurnal

In this paper, the combined influences of biotic interactions, environmental components and harvesting strategy on the spread of Hantavirus are investigated. By employing a multi-species model consisting of (susceptible and infected) rodents and alien species, we show that interspecific competition from alien species has an effect in reducing the spread of infection, and this species could be employed as a potential biocontrol agent. Our analysis using numerical continuation and simulation also reveals the conditions under which Hantavirus infection occurs and disappears as the environmental conditions and the intensity of harvesting change. Without harvesting, infection emerges when environments are conducive. Inclusion of moderate harvesting in favourable environments can lead to disappearance of infection among rodent species. However, as the intensity of harvesting increases, this situation can cause extinction of all rodents species and consequently, jeopardise biodiversity. Overall, our results demonstrate how the interplay of different factors can combine to determine the spread of infectious diseases.

Matched MeSH terms: Biodiversity
Fulltext Seagrass coverage and associated fauna at Gaya Island, Sabah, Malaysia: A pilot seagrass transplantation

Ejria Saleh, Gallagher, John Barry, Tzuen, Kiat Yap

Borneo Journal of Marine Science and Aquaculture, 2020;4(1):14-19.
MyJurnal

Seagrasses provide a range of marine ecosystem services. These include coastal protection, biodiversity, provision of food for various organisms, breeding and nursery habitats for many marine species, and carbon storage. Increasing anthropogenic pressures have contributed to the decline of seagrass habitats. Transplantation is one of the solutions to increase seagrass coverage and resilience. What is often overlooked, however, is the ability of this tropical ecosystem to attract and support faunal assemblages that may impinge on the success of the transplantation. A pilot study on seagrass transplantation at Gaya Island (Kota Kinabalu, Sabah) was intended for observing its stability and species of fauna that develop association with this vegetation. The study covered the southwest and northeast monsoons. Mixed seagrass species were planted on approximately 50% of 30 m 2 transplantation areas. Monitoring of the planted seagrass was carried out in five phases (T1-T5) from September 2016 to April 2018. Weekly observations were made by SCUBA diving. Identification of associated fauna was done on the spot and was based on morphological characteristics. During the T1 (September to December 2016) the seagrass coverage was reduced to 41% due to strong waves generated by the northeast monsoon. However, the seagrass coverage increased ( 66 %) during the southwest monsoon (T2 - T4) in 2017. In early 2018 (T5), the seagrass coverage again reduced (about 18%) due to strong waves but recovered again at the end of the monitoring period (April 2018). A total of 30 species of fauna that were identified consisted of 9 resident and 21 non-resident species. Physical structure of transplanted seagrass created a microhabitat, and increased the food availability and abundance, which attracted many species of different trophic levels.

Matched MeSH terms: Biodiversity
The Effects of Amplification and Dilution Agent in Transmitting Sin Nombre Virus (SNV) in Deer Mouse Population

Lloyd Wen Feng Lee, Mohd Hafiz Mohd

MATEMATIKA, 2020;36(2):85-98.
MyJurnal

1Malaysia
2 (UKM)43600 Bangi, Selangor, Malaysia
∗Corresponding author:

Numerous studies have linked biodiversity with zoonotic disease control. However, researchers have warned against simply believing that the increase in biodiversity can reduce the infection disease in the community. They proposed that amplification effect (increase in biodiversity accompanied by an increase in disease prevalence) might sometimes occur. Thus, we formulated a deterministic model to consider the impact of an amplification or dilution agent on the SNV transmission in the deer mouse population. Bifurcation analysis was carried out to examine the combined influences of the environmental carrying capacity, the interspecific competition strength and the impact of amplification or dilution agent on the deer mouse population. Our results showed that the system with amplification agent required a higher carrying capacity or stronger interspecific strength to compensate for its amplification effect in suppressing the SNV prevalence; this situation explains the lack of reduction in SNV prevalence despite the presence of high biodiversity in some empirical studies. In this study, we highlight the importance of investigating the roles of the additional species in an assemblage to better understand their relationship with the SNV prevalence in deer mouse population.

Matched MeSH terms: Biodiversity
Fulltext Morphological and molecular systematic review of Marphysa Quatrefages, 1865 (Annelida: Eunicidae) species from South Africa

Kara J, Molina-Acevedo IC, Zanol J, Simon C, Idris I

PeerJ, 2020;8:e10076.
PMID: 33150064 DOI: 10.7717/peerj.10076

A vast polychaete fauna is hidden behind complexes of cryptic and pseudo-cryptic species, which has greatly hindered our understanding of species diversity in several regions worldwide. Among the eunicids, Marphysa sanguinea Montagu, 1813 is a typical example, recorded in three oceans and with various species considered its junior synonyms. In South Africa, specimens previously misidentified as M. sanguinea are now known as Marphysa elityeni Lewis & Karageorgopoulos, 2008. Of the six Marphysa Quatrefages, 1865a species recorded from the same region, three have their distributions restricted to South Africa while the others are considered to have worldwide distributions. Here, we evaluated the taxonomic status of the indigenous M. elityeni and investigated the presence of the widespread species Marphysa macintoshi Crossland, 1903 and Marphysa depressa Schmarda, 1861 in South Africa using morphological and molecular data. Our results reveal that M. elityeni is a junior synonym of Marphysa haemasoma, a species previously described from South Africa which is herein reinstated as a valid species. Both M. macintoshi and M. depressa are not present in South Africa and their status as being distributed worldwide deserves further investigation. Marphysa durbanensis Day, 1934 and the new species described here, M. sherlockae n. sp., had been misidentified as M. macintoshi and M. depressa respectively. Thus, the number of Marphysa species with distributions restricted to South Africa increased from three to five. This study reiterates the importance of implementing an integrated taxonomic framework to unravel local biodiversity.

Matched MeSH terms: Biodiversity
Fulltext Current and future trends in socio-economic, demographic and governance factors affecting global primate conservation

Estrada A, Garber PA, Chaudhary A

PeerJ, 2020;8:e9816.
PMID: 32884865 DOI: 10.7717/peerj.9816

Currently, ~65% of extant primate species (ca 512 species) distributed in 91 countries in the Neotropics, mainland Africa, Madagascar, South Asia and Southeast Asia are threatened with extinction and 75% have declining populations as a result of deforestation and habitat loss resulting from increasing global market demands, and land conversion for industrial agriculture, cattle production and natural resource extraction. Other pressures that negatively impact primates are unsustainable bushmeat hunting, the illegal trade of primates as pets and as body parts, expanding road networks in previously isolated areas, zoonotic disease transmission and climate change. Here we examine current and future trends in several socio-economic factors directly or indirectly affecting primates to further our understanding of the interdependent relationship between human well-being, sustainable development, and primate population persistence. We found that between 2001 and 2018 ca 191 Mha of tropical forest (30% canopy cover) were lost as a result of human activities in the five primate range regions. Forty-six percent of this loss was in the Neotropics (Mexico, Central and South America), 30% in Southeast Asia, 21% in mainland Africa, 2% in Madagascar and 1% in South Asia. Countries with the greatest losses (ca 57% of total tree cover loss) were Brazil, Indonesia, DRC, China, and Malaysia. Together these countries harbor almost 50% of all extant primate species. In 2018, the world human population was estimated at ca 8bn people, ca 60% of which were found in primate range countries. Projections to 2050 and to 2100 indicate continued rapid growth of the human populations in these five primate range regions, with Africa surpassing all the other regions and totaling ca 4bn people by the year 2100. Socioeconomic indicators show that, compared to developed nations, most primate range countries are characterized by high levels of poverty and income inequality, low human development, low food security, high levels of corruption and weak governance. Models of Shared Socioeconomic Pathway scenarios (SSPs) projected to 2050 and 2100 showed that whereas practices of increasing inequality (SSP4) or unconstrained growth in economic output and energy use (SSP5) are projected to have dire consequences for human well-being and primate survivorship, practices of sustainability-focused growth and equality (SSP1) are expected to have a positive effect on maintaining biodiversity, protecting environments, and improving the human condition. These results stress that improving the well-being, health, and security of the current and future human populations in primate range countries are of paramount importance if we are to move forward with effective policies to protect the world's primate species and promote biodiversity conservation.

Matched MeSH terms: Biodiversity
Fulltext DNA barcoding of commercially important reef fishes in Weh Island, Aceh, Indonesia

Fadli N, Mohd Nor SA, Othman AS, Sofyan H, Muchlisin ZA

PeerJ, 2020;8:e9641.
PMID: 32844060 DOI: 10.7717/peerj.9641

Knowledge on the precise identification of fish resources is critical for sustainable fisheries management. This study employs the DNA barcoding approach to generate a molecular taxonomic catalogue of commercially important reef fishes in the waters of Weh Island (Aceh Province), the most northerly inhabited island in the biodiverse Indonesian Archipelago. The waters not only support artisanal fisheries but also a feeder for the industry in the greater island of Aceh. In total, 230 specimens from 72 species belonging to 32 genera and 17 families were DNA barcoded, representing a major segment of the captured reef fish taxa and a quarter of fish species diversity that had previously been recorded. The sequence read lengths were 639 bp revealing 359 conserved sites, 280 variable sites, 269 parsimony informative and 11 singletons. Our molecular findings paralleled the morphological identification with no evidence of cryptic species or new species discovery. This study is a significant contribution to the fisheries statistics of this area, which would facilitate assessment of species catch composition and hence for strategizing management plans. It is an important input to the DNA barcode library of Indonesian marine fishes and to the global DNA barcode entries in general.

Matched MeSH terms: Biodiversity
Fulltext Managing threatened ungulates in logged-primary forest mosaics in Malaysia

D MR, Linkie M

PLoS One, 2020;15(12):e0243932.
PMID: 33315909 DOI: 10.1371/journal.pone.0243932

Across the tropics, large-bodied mammals have been affected by selective logging in ways that vary with levels of timber extraction, collateral damage, species-specific traits and secondary effects of hunting, as facilitated by improved access through logging roads. In Peninsular Malaysia, 3.0 million hectares or 61 percent of its Permanent Reserved Forests is officially assigned for commercial selective logging. Understanding how wildlife adapts and uses logged forest is critical for its management and, for threatened species, their conservation. In this study, we quantify the population status of four tropical ungulate species in a large selectively logged forest reserve and an adjacent primary forest protected area. We then conduct finer scale analyses to identify the species-specific factors that determine their occurrence. A combined indirect sign-camera trapping approach with a large sampling effort (2,665 km and 27,780 trap nights surveyed) covering a wide area (560 km2) generated species-specific detection probabilities and site occupancies. Populations of wild boar were widespread across both logged and primary forests, whereas sambar and muntjac occupancy was lower in logged forest (48.4% and 19.2% respectively), with gaur showing no significant difference. Subsequent modelling revealed the importance of conserving lower elevation habitat in both habitat types, particularly <1,000 m asl, for which occupancies of sambar, muntjac and gaur were typically higher. This finding is important because 75 percent (~13,400 km2) of Peninsular Malaysia's Main Range Forest (Banjaran Titiwangsa) is under 1,000 m asl and therefore at risk of being converted to industrial timber plantations, which calls for renewed thinking around forest management planning.

Matched MeSH terms: Biodiversity
Fulltext PREVALENCE OF PARASITE INFESTATIONS AMONG FOUR COMMERCIALLY EXPLOITED WILD SHELLFISH SPECIES IN SETIU WETLAND, TERENGGANU, MALAYSIA

JOEY NG JOE YEE, MARINA HASSAN

UMT Journal of Undergraduate Research, 2020;2(2):57-66.
MyJurnal

The lagoon of Setiu Wetlands has high biodiversity of bivalve’s species. The majority of villagers are fisherman and bivalves are one of their income-generating activities. Studies on parasites of bivalves are important to our knowledge for maintenance of natural resources. This study investigated the parasite prevalence among four commercially exploited shellfish species from Setiu Wetland, Malaysia. A total of 120 samples were collected during the low tide time for four shellfish species which were Polymesoda expansa, Meretrix meretrix, Anadara sp. and Crassostrea iredalei. The bivalve specimens were measured on its length with and without shell, width, height, weight and microscopically examined on the presence of parasites focused at gills, muscle and digestive tract. The discovered macroparasite were fixed into 70% ethanol solution for preservation. In this study, Anadara sp. was highest infestation of parasites, while Polymesoda expansa has the least infestation of parasites. There were occurrence of copepod and Nematopsis sp. in Anadara sp., M. meretrix and C. iredalei. Apart from that, there were other parasites observed in four bivalve species such as metacercaria, cestode larvae, Panopeus sp., Pinnotheres sp., Balanus sp. and unidentified ciliates. Ecological factors, feeding activity, season and abundance of definitive host were known to be elements that altered the prevalence of parasites in host. Upon the observation, a high prevalence of Nematopsis sp. were observed in three species of bivalves except P. expansa. Whereas for other parasites were occurred in low prevalence and intensity, without causing significant damage towards host.

Matched MeSH terms: Biodiversity
Fulltext Emerging challenges for sustainable development and forest conservation in Sarawak, Borneo

Alamgir M, Campbell MJ, Sloan S, Engert J, Word J, Laurance WF

PLoS One, 2020;15(3):e0229614.
PMID: 32126070 DOI: 10.1371/journal.pone.0229614

The forests of Borneo-the third largest island on the planet-sustain some of the highest biodiversity and carbon storage in the world. The forests also provide vital ecosystem services and livelihood support for millions of people in the region, including many indigenous communities. The Pan-Borneo Highway and several hydroelectric dams are planned or already under construction in Sarawak, a Malaysian state comprising part of the Borneo. This development seeks to enhance economic growth and regional connectivity, support community access to services, and promote industrial development. However, the implications of the development of highway and dams for forest integrity, biodiversity and ecosystem services remained largely unreported. We assessed these development projects using fine-scale biophysical and environmental data and found several environmental and socioeconomic risks associated with the projects. The highway and hydroelectric dam projects will impact 32 protected areas including numerous key habitats of threatened species such as the proboscis monkey (Nasalis larvatus), Sarawak surili (Presbytis chrysomelas), Bornean orangutans (Pongo pygmaeus) and tufted ground squirrel (Rheithrosciurus macrotis). Under its slated development trajectory, the local and trans-national forest connectivity between Malaysian Borneo and Indonesian Borneo would also be substantially diminished. Nearly ~161 km of the Pan-Borneo Highway in Sarawak will traverse forested landscapes and ~55 km will traverse carbon-rich peatlands. The 13 hydroelectric dam projects will collectively impact ~1.7 million ha of forest in Sarawak. The consequences of planned highway and hydroelectric dams construction will increase the carbon footprint of development in the region. Moreover, many new road segments and hydroelectric dams would be built on steep slopes in high-rainfall zones and forested areas, increasing both construction and ongoing maintenance costs. The projects would also alter livelihood activities of downstream communities, risking their long-term sustainability. Overall, our findings identify major economic, social and environmental risks for several planned road segments in Sarawak-such as those between Telok Melano and Kuching; Sibu and Bintulu; and in the Lambir, Limbang and Lawas regions-and dam projects-such as Tutoh, Limbang, Lawas, Baram, Linau, Ulu Air and Baleh dams. Such projects need to be reviewed to ensure they reflect Borneo's unique environmental and forest ecosystem values, the aspirations of local communities and long-term sustainability of the projects rather than being assessed solely on their short-term economic returns.

Matched MeSH terms: Biodiversity
Fulltext Museomics for reconstructing historical floristic exchanges: Divergence of stone oaks across Wallacea

Strijk JS, Binh HT, Ngoc NV, Pereira JT, Slik JWF, Sukri RS, et al.

PLoS One, 2020;15(5):e0232936.
PMID: 32442164 DOI: 10.1371/journal.pone.0232936

Natural history collections and tropical tree diversity are both treasure troves of biological and evolutionary information, but their accessibility for scientific study is impeded by a number of properties. DNA in historical specimens is generally highly fragmented, complicating the recovery of high-grade genetic material. Furthermore, our understanding of hyperdiverse, wide-spread tree assemblages is obstructed by extensive species ranges, fragmented knowledge of tropical tree diversity and phenology, and a widespread lack of species-level diagnostic characters, prohibiting the collecting of readily identifiable specimens which can be used to build, revise or strengthen taxonomic frameworks. This, in turn, delays the application of downstream conservation action. A sizable component of botanical collections are sterile-thus eluding identification and are slowing down progress in systematic treatments of tropical biodiversity. With rapid advances in genomics and bioinformatic approaches to biodiversity research, museomics is emerging as a new field breathing life into natural collections that have been built up over centuries. Using MIGseq (multiplexed ISSR genotyping by sequencing), we generated 10,000s of short loci, for both freshly collected materials and museum specimens (aged >100 years) of Lithocarpus-a widespread tropical tree genus endemic to the Asian tropics. Loci recovery from historical and recently collected samples was not affected by sample age and preservation history of the study material, underscoring the reliability and flexibility of the MIGseq approach. Phylogenomic inference and biogeographic reconstruction across insular Asia, highlights repeated migration and diversification patterns between continental regions and islands. Results indicate that co-occurring insular species at the extremity of the distribution range are not monophyletic, raising the possibility of multiple independent dispersals along the outer edge of Wallacea. This suggests that dispersal of large seeded tree genera throughout Malesia and across Wallacea may have been less affected by large geographic distances and the presence of marine barriers than generally assumed. We demonstrate the utility of MIGseq in museomic studies using non-model taxa, presenting the first range-wide genomic assessment of Lithocarpus and tropical Fagaceae as a proof-of-concept. Our study shows the potential for developing innovative genomic approaches to improve the capture of novel evolutionary signals using valuable natural history collections of hyperdiverse taxa.

Matched MeSH terms: Biodiversity
Fulltext Biophysical and anthropogenic influences on the status of Tonga's coral reefs and reef fish fishery

Smallhorn-West P, Gordon S, Stone K, Ceccarelli D, Malimali S, Halafihi T, et al.

PLoS One, 2020;15(11):e0241146.
PMID: 33201891 DOI: 10.1371/journal.pone.0241146

Despite increasing threats to Tonga's coral reefs from stressors that are both local (e.g. overfishing and pollution) and global (e.g. climate change), there is yet to be a systematic assessment of the status of the country's coral reef ecosystem and reef fish fishery stocks. Here, we provide a national ecological assessment of Tonga's coral reefs and reef fish fishery using ecological survey data from 375 sites throughout Tonga's three main island groups (Ha'apai, Tongatapu and Vava'u), represented by seven key metrics of reef health and fish resource status. Boosted regression tree analysis was used to assess and describe the relative importance of 11 socio-environmental variables associated with these key metrics of reef condition. Mean live coral cover across Tonga was 18%, and showed a strong increase from north to south correlated with declining sea surface temperature, as well as with increasing distance from each provincial capital. Tongatapu, the southernmost island group, had 2.5 times greater coral cover than the northernmost group, Vava'u (24.9% and 10.4% respectively). Reef fish species richness and density were comparable throughout Tongatapu and the middle island group, Ha'apai (~35 species/transect and ~2500 fish/km2), but were significantly lower in Vava'u (~24 species/transect and ~1700 fish/km2). Spatial patterns in the reef fish assemblage were primarily influenced by habitat-associated variables (slope, structural complexity, and hard coral cover). The biomass of target reef fish was greatest in Ha'apai (~820 kg/ha) and lowest in Vava'u (~340 kg/ha), and was negatively associated with higher human influence and fishing activity. Overall mean reef fish biomass values suggest that Tonga's reef fish fishery can be classified as moderately to heavily exploited, with 64% of sites having less than 500 kg/ha. This study provides critical baseline ecological information for Tonga's coral reefs that will: (1) facilitate ongoing management and research; and (2) enable accurate reporting on conservation targets locally and internationally.

Matched MeSH terms: Biodiversity
Prevention is better than cure: Persian Gulf biodiversity vulnerability to the impacts of desalination plants

Sharifinia M, Afshari Bahmanbeigloo Z, Smith WO, Yap CK, Keshavarzifard M

Glob Chang Biol, 2019 Dec;25(12):4022-4033.
PMID: 31436851 DOI: 10.1111/gcb.14808

Due to extremely high rates of evaporation and low precipitation in the Persian Gulf, discharges from desalination plants (DPs) can lead to ecological stresses by increasing water temperatures, salinities, and heavy metal concentrations, as well as decreasing dissolved oxygen levels. We discuss the potential ecological impacts of DPs on marine organisms and propose mitigating measures to reduce the problems induced by DPs discharges. The daily capacity of DPs in the Persian Gulf exceeds 11 million m3 per day, which is approximately half of global daily freshwater production; multistage flash distillation (MSF) is the dominant desalination process. Results from field and laboratory studies indicate that there are potentially serious and chronic threats to marine communities following exposure to DP discharges, especially within the zoobenthos, echinodermata, seagrasses, and coral reefs. DP discharges can lead to decreases in sensitive species, plankton abundance, hard substrate epifauna, and growth rates of seagrasses. However, the broad applicability of any one of these impacts is currently hard to scale because of the limited number of studies that have been conducted to assess the ecological impacts of DP discharge on Persian Gulf organisms. Even so, available data suggest that appropriately sited, designed, and operated DPs combined with current developments in impingement and entrainment reduction technology can mitigate many of the negative environmental impacts of DPs.

Matched MeSH terms: Biodiversity
Fulltext Temporal and spatial dynamics of Bacteria, Archaea and protists in equatorial coastal waters

Chénard C, Wijaya W, Vaulot D, Lopes Dos Santos A, Martin P, Kaur A, et al.

Sci Rep, 2019 Nov 08;9(1):16390.
PMID: 31704973 DOI: 10.1038/s41598-019-52648-x

Singapore, an equatorial island in South East Asia, is influenced by a bi-annual reversal of wind directions which defines two monsoon seasons. We characterized the dynamics of the microbial communities of Singapore coastal waters by collecting monthly samples between February 2017 and July 2018 at four sites located across two straits with different trophic status, and sequencing the V6-V8 region of the small sub-unit ribosomal RNA gene (rRNA gene) of Bacteria, Archaea, and Eukaryota. Johor Strait, which is subjected to wider environmental fluctuations from anthropogenic activities, presented a higher abundance of copiotrophic microbes, including Cellvibrionales and Rhodobacterales. The mesotrophic Singapore Strait, where the seasonal variability is caused by changes in the oceanographic conditions, harboured a higher proportion of typically marine microbe groups such as Synechococcales, Nitrosupumilales, SAR11, SAR86, Marine Group II Archaea and Radiolaria. In addition, we observed seasonal variability of the microbial communities in the Singapore Strait, which was possibly influenced by the alternating monsoon regime, while no seasonal pattern was detected in the Johor Strait.

Matched MeSH terms: Biodiversity
Fulltext Reconciling the contribution of environmental and stochastic structuring of tropical forest diversity through the lens of imaging spectroscopy

Bongalov B, Burslem DFRP, Jucker T, Thompson SED, Rosindell J, Swinfield T, et al.

Ecol Lett, 2019 Oct;22(10):1608-1619.
PMID: 31347263 DOI: 10.1111/ele.13357

Both niche and stochastic dispersal processes structure the extraordinary diversity of tropical plants, but determining their relative contributions has proven challenging. We address this question using airborne imaging spectroscopy to estimate canopy β-diversity for an extensive region of a Bornean rainforest and challenge these data with models incorporating niches and dispersal. We show that remotely sensed and field-derived estimates of pairwise dissimilarity in community composition are closely matched, proving the applicability of imaging spectroscopy to provide β-diversity data for entire landscapes of over 1000 ha containing contrasting forest types. Our model reproduces the empirical data well and shows that the ecological processes maintaining tropical forest diversity are scale dependent. Patterns of β-diversity are shaped by stochastic dispersal processes acting locally whilst environmental processes act over a wider range of scales.

Matched MeSH terms: Biodiversity*
Fulltext Diversity, enumeration, and isolation of Arcobacter spp. in the giant abalone, Haliotis gigantea

Mizutani Y, Iehata S, Mori T, Oh R, Fukuzaki S, Tanaka R

Microbiologyopen, 2019 10;8(10):e890.
PMID: 31168933 DOI: 10.1002/mbo3.890

Arcobacter have been frequently detected in and isolated from bivalves, but there is very little information on the genus Arcobacter in the abalone, an important fishery resource. This study aimed to investigate the genetic diversity and abundance of bacteria from the genus Arcobacter in the Japanese giant abalone, Haliotis gigantea, using molecular methods such as Arcobacter-specific clone libraries and fluorescence in situ hybridization (FISH). Furthermore, we attempted to isolate the Arcobacter species detected. Twelve genotypes of clones were obtained from Arcobacter-specific clone libraries. These sequences are not classified with any other known Arcobacter species including pathogenic Arcobacter spp., A. butzleri, A. skirrowii, and A. cryaerophilus, commonly isolated or detected from bivalves. From the FISH analysis, we observed that ARC94F-positive cells, presumed to be Arcobacter, accounted for 6.96 ± 0.72% of all EUB338-positive cells. In the culture method, three genotypes of Arcobacter were isolated from abalones. One genotype had a similarity of 99.2%-100.0% to the 16S rRNA gene of Arcobacter marinus, while the others showed only 93.3%-94.3% similarity to other Arcobacter species. These data indicate that abalones carry Arcobacter as a common bacterial genus which includes uncultured species.

Matched MeSH terms: Biodiversity*
Fulltext Market-mediated responses confound policies to limit deforestation from oil palm expansion in Malaysia and Indonesia

Taheripour F, Hertel TW, Ramankutty N

Proc Natl Acad Sci U S A, 2019 09 17;116(38):19193-19199.
PMID: 31481625 DOI: 10.1073/pnas.1903476116

The global demand for palm oil has grown rapidly over the past several decades. Much of the output expansion has occurred in carbon- and biodiversity-rich forest lands of Malaysia and Indonesia (M&I), contributing to record levels of terrestrial carbon emissions and biodiversity loss. This has led to a variety of voluntary and mandatory regulatory actions, as well as calls for limits on palm oil imports from M&I. This paper offers a comprehensive, global assessment of the economic and environmental consequences of alternative policies aimed at limiting deforestation from oil palm expansion in M&I. It highlights the challenges of limiting forest and biodiversity loss in the presence of market-mediated spillovers into related oilseed and agricultural commodity and factor markets, both in M&I and overseas. Indeed, limiting palm oil production or consumption is unlikely to halt deforestation in M&I in the absence of active forest conservation incentives. Policies aimed at restricting palm oil production in M&I also have broader consequences for the economy, including significant impacts on consumer prices, real wages, and welfare, that vary among different global regions. A crucial distinction is whether the initiative is undertaken domestically, in which case the M&I region could benefit, or by major palm oil importers, in which case M&I loses income. Nonetheless, all policies considered here pass the social welfare test of global carbon dioxide mitigation benefits exceeding their costs.

Matched MeSH terms: Biodiversity
Who is biting you? DNA barcodes reveal cryptic diversity in human-biting black flies (Diptera: Simuliidae)

Jomkumsing P, Tangkawanit U, Wongpakam K, Pramual P

Acta Trop, 2019 Aug;196:22-29.
PMID: 31059708 DOI: 10.1016/j.actatropica.2019.05.001

Black flies (Simuliidae) are important biting insects and vectors of diseases agents of humans and livestock. Thus, understanding the taxonomy and biodiversity of these insects is crucial for control and management of these diseases. In this study, we used mitochondrial cytochrome c oxidase I sequences to examine genetic diversity of three human-biting and possible vector black fly taxa; the Simulium asakoae species-complex, S. chamlongi and S. nigrogilvum. High levels of genetic diversity (>3.5% intraspecific genetic divergence) were found in all three taxa. Phylogenetic analyses indicated that the S. asakoae complex can be divided into seven groups with the largest group consisting of specimens from Thailand, Malaysia and Myanmar. This group most likely represents true S. asakoae. The remaining haplotypes formed groups with conspecific haplotypes or with other closely related species. Among these groups, one including S. monglaense and another including S. myanmarense suggest that certain specimens identified as S. asakoae most likely belong to those species. Therefore, they constitute new locality records for Thailand and also represent new records of anthropophily. Members of S. chamlongi are not monophyletic as its clade also included S. hackeri. A median joining network revealed strong geographic associations of the haplotypes of S. nigrogilvum suggesting limitation of gene flow. Because this species occurs mainly in high elevation habitats, low land areas could present a barrier to gene flow.

Matched MeSH terms: Biodiversity*

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