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Pyrosequencing analysis of microbial community and food-borne bacteria on restaurant cutting boards collected in Seri Kembangan, Malaysia, and their correlation with grades of food premises

Abdul-Mutalib NA, Amin Nordin S, Osman M, Ishida N, Tashiro K, Sakai K, et al.

Int J Food Microbiol, 2015 May 4;200:57-65.
PMID: 25679309 DOI: 10.1016/j.ijfoodmicro.2015.01.022

This study adopts the pyrosequencing technique to identify bacteria present on 26 kitchen cutting boards collected from different grades of food premises around Seri Kembangan, a city in Malaysia. Pyrosequencing generated 452,401 of total reads of OTUs with an average of 1.4×10(7) bacterial cells/cm(2). Proteobacteria, Firmicutes and Bacteroides were identified as the most abundant phyla in the samples. Taxonomic richness was generally high with >1000 operational taxonomic units (OTUs) observed across all samples. The highest appearance frequencies (100%) were OTUs closely related to Enterobacter sp., Enterobacter aerogenes, Pseudomonas sp. and Pseudomonas putida. Several OTUs were identified most closely related to known food-borne pathogens, including Bacillus cereus, Cronobacter sakazaki, Cronobacter turisensis, Escherichia coli, E. coli O157:H7, Hafnia alvei, Kurthia gibsonii, Salmonella bongori, Salmonella enterica, Salmonella paratyphi, Salmonella tyhpi, Salmonella typhimurium and Yersinia enterocolitica ranging from 0.005% to 0.68% relative abundance. The condition and grade of the food premises on a three point cleanliness scale did not correlate with the bacterial abundance and type. Regardless of the status and grades, all food premises have the same likelihood to introduce food-borne bacteria from cutting boards to their foods and must always prioritize the correct food handling procedure in order to avoid unwanted outbreak of food-borne illnesses.

Matched MeSH terms: Biodiversity
The ground beetle fauna (Coleoptera: Carabidae) of Kenyir water catchment, Terengganu, Peninsular Malaysia

Abdullah F, Sina I, Fauzee F

Pak J Biol Sci, 2008 Nov 01;11(21):2478-83.
PMID: 19205267

An assemblage of beetle specimens from family Carabidae (ground beetles) was carried out at Kenyir water catchment as an indicator to measure disturbance. The samplings were conducted from 30th July to 1st August 2007 at limestone forest of Teluk Bewah and the dipterocarp forest of Sungai Cicir. 28 individuals from 13 species were collected from Teluk Bewah whereas 54 individuals from ten species was sampled from Sungai Cicir. The carabids were more specious (Simpson Diversity index: 0.97) and more abundant (Margalef index: 5.35) at Teluk Bewah compared to Sungai Cicir (Simpson Diversity index, 0.72: Margalefindex, 2.22). Light trapping was most efficient assembling 97.56% of ground beetles compared to Malaise trap, pitfall and net sweeping. This is the first record of beetle assemblage at Kenyir water catchment, Malaysia. New records for Kenyir, Terengganu, Malaysia are Abacetus sp. 1, Abacetus sp. 2, Acupalpus rectifrotis, Aephnidius adelioides, Dischissus notulatus, Dolichoctis sp., Dolichoctis sp. 2, Dolichoctis straitus, Ophinoea bimaculata, Perigona sp., Pheropsophus piciccollis, Pheropsophus occipitalis, Stenolophus quinquepustulatus, Stenolophus smaragdulus, Stenolophus sp., Tachys coracinus, Casnoidea sp., Orthogonius sp. Seven species coded as Cara C, Cara J, Cara M, Cara N, Cara O, Cara R and Cara S were unidentified and are probably new species to be described in another report. There is moderately high diversity (Simpson Diversity index: 0.846) of Carabidae indicating that ecotourism does not affect diversity of ground beetle at Kenyir Lake.

Matched MeSH terms: Biodiversity
From Barcodes to Biomes: Special Issues from the 6th International Barcode of Life Conference

Adamowicz SJ, Chain FJ, Clare EL, Deiner K, Dincă V, Elías-Gutiérrez M, et al.

Genome, 2016 Sep;59(9):v-ix.
PMID: 27611699 DOI: 10.1139/gen-2016-0159
Matched MeSH terms: Biodiversity
Fulltext Vietnam, a Hotspot for Chromosomal Diversity and Cryptic Species in Black Flies (Diptera: Simuliidae)

Adler PH, Takaoka H, Sofian-Azirun M, Low VL, Ya'cob Z, Chen CD, et al.

PLoS One, 2016;11(10):e0163881.
PMID: 27695048 DOI: 10.1371/journal.pone.0163881

The increasing attention on Vietnam as a biodiversity hotspot prompted an investigation of the potential for cryptic diversity in black flies, a group well known elsewhere for its high frequency of isomorphic species. We analyzed the banding structure of the larval polytene chromosomes in the Simulium tuberosum species group to probe for diversity beyond the morphological level. Among 272 larvae, 88 different chromosomal rearrangements, primarily paracentric inversions, were discovered in addition to 25 already known in the basic sequences of the group in Asia. Chromosomal diversity in Vietnam far exceeds that known for the group in Thailand, with only about 5% of the rearrangements shared between the two countries. Fifteen cytoforms and nine morphoforms were revealed among six nominal species in Vietnam. Chromosomal evidence, combined with available molecular and morphological evidence, conservatively suggests that at least five of the cytoforms are valid species, two of which require formal names. The total chromosomal rearrangements and species (15) now known from the group in Vietnam far exceed those of any other area of comparable size in the world, supporting the country's status as a biodiversity hotspot. Phylogenetic inference based on uniquely shared, derived chromosomal rearrangements supports the clustering of cytoforms into two primary lineages, the Simulium tani complex and the Southeast Asian Simulium tuberosum subgroup. Some of these taxa could be threatened by habitat destruction, given their restricted geographical distributions and the expanding human population of Vietnam.

Matched MeSH terms: Biodiversity*
Fulltext Conspectus of flora, fauna and micro-climate data in Tasik Kenyir from Mac 2015-February 2016

Afiq Ramlee MN, Hussin MF, Roslan A, Rosmidi FH, Pesiu E, Aisyah A Rahim N, et al.

Data Brief, 2020 Apr;29:105328.
PMID: 32181296 DOI: 10.1016/j.dib.2020.105328

This data article presents the diversity of flora and selected fauna in Tasik Kenyir, Malaysia. This man-made lake once suffered huge loss of biodiversity for allowing an earth-dam construction during 1980s. Series of publications on different types of target taxa have been published separately after the post-dam construction. A biodiversity assessment was conducted in Tasik Kenyir from March 2015 until February 2016. The one year assessment were compiled with the previous published data to document and updated the biodiversity checklist in the lake. The data show that Tasik Kenyir is occupied by 113 tree species, 217 butterfly species, 35 bee species, 26 reptile species, 267 aves species and 153 mammal species. The micro-climate data was downloaded from the Malaysian Meteorological Department and analysed in R Studio to highlight the relationship between climate data and biodiversity data.

Matched MeSH terms: Biodiversity
A survey of acarine ectoparasites of bats (Chiroptera) in Malaysia

Ahamad M, Ibrahim H, Bujang MK, Sah SA, Mohamad N, Nor SM, et al.

J Med Entomol, 2013 Jan;50(1):140-6.
PMID: 23427663

A comprehensive 8-yr survey of acarine ectoparasites (ticks and mites) of bats was carried out in 18 localities from 2002 to 2009. Most of the surveys were conducted during 14 national biodiversity scientific expeditions throughout Malaysia. The objective was to identify acarines of known public health importance from bats and thus determine whether there is any potential public health risk in Malaysia. Trapping of bats was conducted using Harp traps and Mist nets. In total, 1,579 individuals comprising of 6 families and 52 species of bats were examined alive. In general, 25.6% of the bats were infested with acarines. Infestation rates of ticks, mesostigmatid mites, and chiggers on bats examined were 0.4, 10.4, and 14.7%, respectively. Their prevalence and mean intensity were tabulated. Genera of ticks extracted were Amblyomma, Dermacentor, Ixodes, and Ornithodoros. Of these genera, only two species can be identified to species level and they are Amblyomma cordiferum and Ixodes simplex. In total, 8 genera and 15 species of mesostigmatid mites were found; the species were Ancystropus eonycteris, Ancystropus zeleborii, Echinonysus nasutus, Laelaps aingworthae, Laelaps nuttalli, Laelaps sanguisugus, Laelaps sculpturatus, Longolaelaps longulus, Longolaelaps whartonii, Meristaspis lateralis, Meristaspis macroglossi, Paraperiglischrus rhinolophinus, Spinturnix acuminatus, Spinturnix americanus, and Spinturnix bakeri. Chiggers on bats were represented by 12 genera and 6 species; the species identified were Gahrliepia fletcheri, Riedlinia lipoxena, Trombigastia cadei, Walchiella impar, Walchiella oudemansi, and Whartonia caobangensis. The study produced an up-to-date list of acarine ectoparasites of bats in Malaysia where a total of 38 genera and 47 species of acarines were listed. Findings of the study demonstrated that 5 genera and 1 species of acarines that may pose potential health risks, can be found on bats.

Matched MeSH terms: Biodiversity
Preliminary Study on Invasive Fish Species Diffusion in Selected Malaysian Freshwater Ecosystems

Ahmad AK, Nur-Hazwani MNR, Aisyah Syed Omar S, Aweng ER, Taweel A

Pak J Biol Sci, 2020 Jan;23(11):1374-1379.
PMID: 33274864 DOI: 10.3923/pjbs.2020.1374.1379

BACKGROUND AND OBJECTIVE: Malaysia reported experiencing serious invasive species intrusion in various rivers and threatening some local species to distinct. A study was undertaken to estimate and compare their composition and species richness in two pristine and two disturbed freshwater ecosystems.
MATERIALS AND METHODS: Invasive and local species growth pattern was also estimated using length-weight analysis. Sampling was conducted using cast net and electric shock in each river twice in 12 months. Fish collected were identified, photo captured and measured for their weight and length. The growth pattern was also estimated using length-weight analysis.
RESULTS: A total of 188 fishes were caught, comprises of 8 families and 15 species (ten local species with 119 individuals and five alien species with 69 individuals). Sistomus binotatus was the most dominant local species, whereas Tilapia nilotica was the most dominant alien species. There is no significant difference in composition between local and invasive species occur indicates the raise of alien species in those ecosystems even local species still dominated. The growth pattern for Sistomus binotatus and Clarias batrachus is isometric in the pristine ecosystem but negative isometric in disturbed rivers. Contrary, Tilapia nilotica has isometric for both ecosystems.
CONCLUSION: This study concluded the capability and potential of colonization of alien species in stress ecosystem especially Tilapia nilotica. Thus, there is potential colonization of alien in Malaysia freshwater systems and a threat to local species due to food competition, site preferences and survival ability.

Matched MeSH terms: Biodiversity*
Measuring the impact of global tropospheric ozone, carbon dioxide and sulfur dioxide concentrations on biodiversity loss

Ahmed Bhuiyan M, Rashid Khan HU, Zaman K, Hishan SS

Environ Res, 2018 01;160:398-411.
PMID: 29065379 DOI: 10.1016/j.envres.2017.10.013

The aim of this study is to examine the impact of air pollutants, including mono-nitrogen oxides (NOx), nitrous oxide (N2O), sulfur dioxide (SO2), carbon dioxide emissions (CO2), and greenhouse gas (GHG) emissions on ecological footprint, habitat area, food supply, and biodiversity in a panel of thirty-four developed and developing countries, over the period of 1995-2014. The results reveal that NOx and SO2 emissions both have a negative relationship with ecological footprints, while N2O emission and real GDP per capita have a direct relationship with ecological footprints. NOx has a positive relationship with forest area, per capita food supply and biological diversity while CO2 emission and GHG emission have a negative impact on food production. N2O has a positive impact on forest area and biodiversity, while SO2 emissions have a negative relationship with them. SO2 emission has a direct relationship with per capita food production, while GDP per capita significantly affected per capita food production and food supply variability across countries. The overall results reveal that SO2, CO2, and GHG emissions affected potential habitat area, while SO2 and GHG emissions affected the biodiversity index. Trade liberalization policies considerably affected the potential habitat area and biological diversity in a panel of countries.

Matched MeSH terms: Biodiversity*
Identification of appropriate biodiversity indicators for ecologically sustainable forest management at national level

Ahmet Tolunay, Ayhan Akyol

Sains Malaysiana, 2015;44:159-166.

Sustainable forest management (SFM) practices have started in 1999 in Turkey. A set of criteria and indicators, composed by the General Directorate of Forestry (GDF) on the basis of the criteria and indicators defined in the Pan-European and Near Eastern Processes, was enquired via a survey to serve this purpose. GDF tested the sustainability under the following titles: Situation of forest resources, biodiversity, health and vitality, production capacity and functions, protective functions and environmental and socio-economic functions. There were problems in identification and definition of SFM criteria and indicators. Biological diversity indicators has been selected, described and developed in this study. At this phase, the survey was completed upon receiving the views of the scientists interested in different dimensions of this topic as well as the views of other interest groups affiliated with forestry. As a result, there were 13 indicators that may be used as the basis of a regional or forest management unit level for the purpose of protecting, developing and maintaining biodiversity. Furthermore, these indicators are instruments, which may easily be used by relevant decision-makers in the management of forest resources in a more effective and productive manner.

Matched MeSH terms: Biodiversity
Influence of agricultural, industrial, and anthropogenic stresses on the distribution and diversity of macroinvertebrates in Juru River Basin, Penang, Malaysia

Al-Shami SA, Md Rawi CS, Ahmad AH, Abdul Hamid S, Mohd Nor SA

Ecotoxicol Environ Saf, 2011 Jul;74(5):1195-202.
PMID: 21419486 DOI: 10.1016/j.ecoenv.2011.02.022

Abundance and diversity of benthic macroinvertebrates as well as physico-chemical parameters were investigated in five rivers of the Juru River Basin in northern Peninsula Malaysia: Ceruk Tok Kun River (CTKR), Pasir River (PR), Permatang Rawa River (PRR), Kilang Ubi River (KUR), and Juru River (JR). The physico-chemical parameters and calculated water quality index (WQI) were significantly different among the investigated rivers (ANOVA, P<0.05). The WQI classified CTKR, PR, and JR into class III (slightly polluted). However, PRR and KUR fell into class IV (polluted). High diversity and abundance of macroinvertebrates, especially the intolerant taxa, Ephemeroptera, Plecoptera, and Trichoptera, were observed in the least polluted river, CTKR. Decreasing abundance of macroinvertebrates followed the deterioration of river water quality with the least number of the most tolerant taxa collected from PR. On the basis of composition and sensitivity of macroinvertebrates to pollutants in each river, the highest Biological Monitoring Working Party (BMWP) index score of 93 was reported in CTKR (good water quality). BMWP scores in PRR and JR were 38.7 and 20.1, respectively, classifying both of them into "moderate water quality" category. Poor water quality was reported in PR and KUR. The outcome of the multivariate analysis (CCA) was highly satisfactory, explaining 43.32% of the variance for the assemblages of macroinvertebrates as influenced by 19 physical and chemical variables. According to the CCA model, we assert that there were three levels of stresses on macroinvertebrate communities in the investigated rivers: Level 1, characterized of undisturbed or slightly polluted as in the case of CTKR; Level 2, characterized by a lower habitat quality (the JR) compared to the CTKR; and Level 3 showed severe environmental stresses (PRR, PR, and KUR) primarily contributed by agricultural, industrial, and municipal discharges.

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 Rhizodegradation of Petroleum Oily Sludge-contaminated Soil Using Cajanus cajan Increases the Diversity of Soil Microbial Community

Allamin IA, Halmi MIE, Yasid NA, Ahmad SA, Abdullah SRS, Shukor Y

Sci Rep, 2020 Mar 05;10(1):4094.
PMID: 32139706 DOI: 10.1038/s41598-020-60668-1

Most components of petroleum oily sludge (POS) are toxic, mutagenic and cancer-causing. Often bioremediation using microorganisms is hindered by the toxicity of POS. Under this circumstance, phytoremediation is the main option as it can overcome the toxicity of POS. Cajanus cajan a legume plant, was evaluated as a phyto-remediating agent for petroleum oily sludge-spiked soil. Culture dependent and independent methods were used to determine the rhizosphere microorganisms' composition. Degradation rates were estimated gravimetrically. The population of total heterotrophic bacteria (THRB) was significantly higher in the uncontaminated soil compared to the contaminated rhizosphere soil with C. cajan, but the population of hydrocarbon-utilizing bacteria (HUB) was higher in the contaminated rhizosphere soil. The results show that for 1 to 3% oily sludge concentrations, an increase in microbial counts for all treatments from day 0 to 90 d was observed with the contaminated rhizosphere CR showing the highest significant increase (p

Matched MeSH terms: Biodiversity
A new twist on a very old binary similarity coefficient

Alroy J

Ecology, 2015 Feb;96(2):575-86.
PMID: 26240877

Pairwise similarity coefficients are downward biased when samples only record presences and sampling is partial. A simple but forgotten index proposed by Stephen Forbes in 1907 can help solve this problem. His original equation requires knowing the number of species absent in both samples that could have been present. It is proposed that this count should simply be ignored and that the coefficient should be adjusted using a simple heuristic correction. Four analyses show that the corrected equation outperforms the Dice and Simpson indices, which are highly correlated with many others. In two-sample simulations, similarity is almost always closer to the assumed value when the species pool size and sampling intensity are varied, regardless of whether the underlying abundance distribution is uniform, log-normal, or geometric. The index is also much more robust when sampling is unequal. An analysis of bat samples from peninsular Malaysia buttresses these conclusions. The corrected coefficient also indicates that local assemblages of North American mammals are random subsamples of larger species pools by returning similarity of values of around 1, and it suggests a more consistent relationship between biome-scale comparisons and local-scale comparisons. Finally, it yields a better-dispersed pattern when the biome-scale inventories are ordinated. If these results are generalizable, then the new and old equation should see wide application, potentially taking the place of the two most commonly used alternatives (the interrelated Dice and Jaccard indices) whenever sampling is incomplete.

Matched MeSH terms: Biodiversity
The costs of exclusion: recognizing a role for local communities in biodiversity conservation

Ancrenaz M, Dabek L, O'Neil S

PLoS Biol, 2007 Oct 23;5(11):e289.
PMID: 17958473
Matched MeSH terms: Biodiversity*
The global palm oil sector must change to save biodiversity and improve food security in the tropics

Azhar B, Saadun N, Prideaux M, Lindenmayer DB

J Environ Manage, 2017 Dec 01;203(Pt 1):457-466.
PMID: 28837912 DOI: 10.1016/j.jenvman.2017.08.021

Most palm oil currently available in global markets is sourced from certified large-scale plantations. Comparatively little is sourced from (typically uncertified) smallholders. We argue that sourcing sustainable palm oil should not be determined by commercial certification alone and that the certification process should be revisited. There are so-far unrecognized benefits of sourcing palm oil from smallholders that should be considered if genuine biodiversity conservation is to be a foundation of 'environmentally sustainable' palm oil production. Despite a lack of certification, smallholder production is often more biodiversity-friendly than certified production from large-scale plantations. Sourcing palm oil from smallholders also alleviates poverty among rural farmers, promoting better conservation outcomes. Yet, certification schemes - the current measure of 'sustainability' - are financially accessible only for large-scale plantations that operate as profit-driven monocultures. Industrial palm oil is expanding rapidly in regions with weak environmental laws and enforcement. This warrants the development of an alternative certification scheme for smallholders. Greater attention should be directed to deforestation-free palm oil production in smallholdings, where production is less likely to cause large scale biodiversity loss. These small-scale farmlands in which palm oil is mixed with other crops should be considered by retailers and consumers who are interested in promoting sustainable palm oil production. Simultaneously, plantation companies should be required to make their existing production landscapes more compatible with enhanced biodiversity conservation.

Matched MeSH terms: Biodiversity*
Anthropogenic impacts on the distribution and biodiversity of benthic macroinvertebrates and water quality of the Langat River, Peninsular Malaysia

Azrina MZ, Yap CK, Rahim Ismail A, Ismail A, Tan SG

Ecotoxicol Environ Saf, 2006 Jul;64(3):337-47.
PMID: 15964072

A study of the impacts of anthropogenic activities on the distribution and biodiversity of benthic macroinvertebrates and water quality of the Langat River (Peninsular Malaysia) was conducted. Four pristine stations from the upstream and 4 stations at the downstream receiving anthropogenic impacts were selected along the river. For 4 consecutive months (March-June 1999), based on the Malaysian DOE (Malaysia Environmental Quality Report 2000, Department of Environment, Ministry of Science, Technology and Environment Malaysia. Maskha Sdn. Bhd. Kuala Lumpur, 86pp; Malaysia Environmental Quality Report 2001, Department of Environment, Ministry of Science, Technology and the Environment Malaysia) water quality index classes, the upstream stations recorded significantly (P<0.05) higher Biological Monitoring Working Party scores and better water quality indices than those of the downstream. The total number of macrobenthic taxa and their overall richness indices and diversity indices were significantly (P<0.05) higher at the upstream stations (54 taxa) than at the downstream stations (5 taxa). The upstream of the Langat River was dominated by Ephemeroptera and chironomid dipterans while other orders found in small quantities included Trichoptera, Diptera, Plecoptera, Odonata, Ephemeraptera, Coleoptera, and Gastropoda. On the other hand, the downstream of the river was mainly inhabited by the resistant Oligochaeta worms Limnodrilus spp. and Branchiodrilus sp. and Hirudinea in small numbers. The relationships between the physicochemical and the macrobenthic data were investigated by Pearson correlation analysis and multiple stepwise regression analysis. These statistical analyses showed that the richness and diversity indices were generally influenced by the total suspended solids and the conductivity of the river water. This study also highlighted the impacts of anthropogenic land-based activities such as urban runoff on the distribution and species diversity of macrobenthic invertebrates in the downstream of the Langat River. The data obtained in this study supported the use of the bioindicator concept for Malaysian rivers. Some sensitive (Trichopteran caddisflies and Ephemeraptera) and resistant species (Oligochaeta such as Limnodrilus spp.) are identified as potential bioindicators of clean and polluted river ecosystems, respectively, for Malaysian rivers.

Matched MeSH terms: Biodiversity*
Fulltext DNA barcoding of Malaysian commercial snapper reveals an unrecognized species of the yellow-lined Lutjanus (Pisces:Lutjanidae)

Bakar AA, Adamson EAS, Juliana LH, Nor Mohd SA, Wei-Jen C, Man A, et al.

PLoS One, 2018;13(9):e0202945.
PMID: 30183729 DOI: 10.1371/journal.pone.0202945

Management of wild fisheries resources requires accurate knowledge on which species are being routinely exploited, but it can be hard to identify fishes to species level, especially in speciose fish groups where colour patterns vary with age. Snappers of the genus Lutjanus represent one such group, where fishes can be hard to identify and as a result fisheries statistics fail to capture species-level taxonomic information. This study employs traditional morphological and DNA barcoding approaches to identify adult and juvenile Lutjanus species harvested in Malaysian waters. Our results reveal a suite of species that differs markedly from those that have previously been considered important in the Malaysian wild-capture fishery and show that official fisheries statistics do not relate to exploitation at the species level. Furthermore, DNA barcoding uncovered two divergent groups of bigeye snapper ('Lutjanus lutjanus') distributed on either side of the Malay Peninsula, displaying a biogeographical pattern similar to distributions observed for many co-occurring reef-distributed fish groups. One of these bigeye snapper groups almost certainly represents an unrecognized species in need of taxonomic description. The study demonstrates the utility of DNA barcoding in uncovering overlooked diversity and for assessing species catch composition in a complicated but economically important taxonomic group.

Matched MeSH terms: Biodiversity
Fulltext The road to recovery: a synthesis of outcomes from ecosystem restoration in tropical and sub-tropical Asian forests

Banin LF, Raine EH, Rowland LM, Chazdon RL, Smith SW, Rahman NEB, et al.

Philos Trans R Soc Lond B Biol Sci, 2023 Jan 02;378(1867):20210090.
PMID: 36373930 DOI: 10.1098/rstb.2021.0090

Current policy is driving renewed impetus to restore forests to return ecological function, protect species, sequester carbon and secure livelihoods. Here we assess the contribution of tree planting to ecosystem restoration in tropical and sub-tropical Asia; we synthesize evidence on mortality and growth of planted trees at 176 sites and assess structural and biodiversity recovery of co-located actively restored and naturally regenerating forest plots. Mean mortality of planted trees was 18% 1 year after planting, increasing to 44% after 5 years. Mortality varied strongly by site and was typically ca 20% higher in open areas than degraded forest, with height at planting positively affecting survival. Size-standardized growth rates were negatively related to species-level wood density in degraded forest and plantations enrichment settings. Based on community-level data from 11 landscapes, active restoration resulted in faster accumulation of tree basal area and structural properties were closer to old-growth reference sites, relative to natural regeneration, but tree species richness did not differ. High variability in outcomes across sites indicates that planting for restoration is potentially rewarding but risky and context-dependent. Restoration projects must prepare for and manage commonly occurring challenges and align with efforts to protect and reconnect remaining forest areas. The abstract of this article is available in Bahasa Indonesia in the electronic supplementary material. This article is part of the theme issue 'Understanding forest landscape restoration: reinforcing scientific foundations for the UN Decade on Ecosystem Restoration'.

Matched MeSH terms: Biodiversity
Fulltext Standardized Assessment of Biodiversity Trends in Tropical Forest Protected Areas: The End Is Not in Sight

Beaudrot L, Ahumada JA, O'Brien T, Alvarez-Loayza P, Boekee K, Campos-Arceiz A, et al.

PLoS Biol, 2016 Jan;14(1):e1002357.
PMID: 26785119 DOI: 10.1371/journal.pbio.1002357

Extinction rates in the Anthropocene are three orders of magnitude higher than background and disproportionately occur in the tropics, home of half the world's species. Despite global efforts to combat tropical species extinctions, lack of high-quality, objective information on tropical biodiversity has hampered quantitative evaluation of conservation strategies. In particular, the scarcity of population-level monitoring in tropical forests has stymied assessment of biodiversity outcomes, such as the status and trends of animal populations in protected areas. Here, we evaluate occupancy trends for 511 populations of terrestrial mammals and birds, representing 244 species from 15 tropical forest protected areas on three continents. For the first time to our knowledge, we use annual surveys from tropical forests worldwide that employ a standardized camera trapping protocol, and we compute data analytics that correct for imperfect detection. We found that occupancy declined in 22%, increased in 17%, and exhibited no change in 22% of populations during the last 3-8 years, while 39% of populations were detected too infrequently to assess occupancy changes. Despite extensive variability in occupancy trends, these 15 tropical protected areas have not exhibited systematic declines in biodiversity (i.e., occupancy, richness, or evenness) at the community level. Our results differ from reports of widespread biodiversity declines based on aggregated secondary data and expert opinion and suggest less extreme deterioration in tropical forest protected areas. We simultaneously fill an important conservation data gap and demonstrate the value of large-scale monitoring infrastructure and powerful analytics, which can be scaled to incorporate additional sites, ecosystems, and monitoring methods. In an era of catastrophic biodiversity loss, robust indicators produced from standardized monitoring infrastructure are critical to accurately assess population outcomes and identify conservation strategies that can avert biodiversity collapse.

Matched MeSH terms: Biodiversity*
Diversity partitioning confirms the importance of beta components in tropical rainforest Lepidoptera

Beck J, Holloway JD, Khen CV, Kitching IJ

Am Nat, 2012 Sep;180(3):E64-74.
PMID: 22854086 DOI: 10.1086/666982

Tropical beta diversity, and particularly that of herbivorous insects in rainforests, is often considered to be enormous, but this notion has recently been challenged. Because tropical beta diversity is highly relevant to our view on biodiversity, it is important to gain more insights and to resolve methodological problems that may lead to contradictions in different studies. We used data on two ecologically distinct moth families from Southeast Asia and analyzed separately the contribution of beta components to overall species richness at three spatial scales. Observed diversity partitions were compared under different types of null models. We found that alpha diversity was lower than expected on the basis of null models, whereas hierarchical beta components were larger than expected. Beta components played a significant role in shaping gamma diversity, and their contribution can be high (multiplicative beta >5). We found a reduction in beta components when comparing primary forests to agricultural sites (cf. "biotic homogenization"), but even in these habitats, beta components were still substantial. Our analyses show that beta components do play an important role in our data on tropical herbivorous insects and that these results are not attributable to lumping different habitats when sampling environmental gradients.

Matched MeSH terms: Biodiversity*

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