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Fulltext Limitations of cytochrome oxidase I for the barcoding of Neritidae (Mollusca: Gastropoda) as revealed by Bayesian analysis

Chee SY

Genet. Mol. Res., 2015;14(2):5677-84.
PMID: 26125766 DOI: 10.4238/2015.May.25.20

The mitochondrial DNA (mtDNA) cytochrome oxidase I (COI) gene has been universally and successfully utilized as a barcoding gene, mainly because it can be amplified easily, applied across a wide range of taxa, and results can be obtained cheaply and quickly. However, in rare cases, the gene can fail to distinguish between species, particularly when exposed to highly sensitive methods of data analysis, such as the Bayesian method, or when taxa have undergone introgressive hybridization, over-splitting, or incomplete lineage sorting. Such cases require the use of alternative markers, and nuclear DNA markers are commonly used. In this study, a dendrogram produced by Bayesian analysis of an mtDNA COI dataset was compared with that of a nuclear DNA ATPS-α dataset, in order to evaluate the efficiency of COI in barcoding Malaysian nerites (Neritidae). In the COI dendrogram, most of the species were in individual clusters, except for two species: Nerita chamaeleon and N. histrio. These two species were placed in the same subcluster, whereas in the ATPS-α dendrogram they were in their own subclusters. Analysis of the ATPS-α gene also placed the two genera of nerites (Nerita and Neritina) in separate clusters, whereas COI gene analysis placed both genera in the same cluster. Therefore, in the case of the Neritidae, the ATPS-α gene is a better barcoding gene than the COI gene.
Navigating the twilight years: Supporting older adults' orientation and wayfinding in senior living facilities

Chee SY

Arch Gerontol Geriatr, 2023 Dec;115:105135.
PMID: 37487457 DOI: 10.1016/j.archger.2023.105135

In their twilight years, spatial disorientation can cause significant challenges for older adults, leading them to become perpetually disoriented or rely more on environmental cues and others for navigation. Unfortunately, wayfinding within senior living facilities is often an afterthought for senior living facility planners. This study explores the lived experiences of older adults coping with spatial disorientation and wayfinding in senior living facilities and the consequential impact on their physical, social, and psychosocial well-being. Data were collected from 28 older adults in six senior living facilities within three urban locations. The study used one-on-one, semi-structured, in-depth interviews and the Modified Stevick-Colaizzi-Keen analysis method guided by Moustakas' transcendental phenomenology. Five primary themes emerged: spatial disorientation, wayfinding, self-evident stimuli, visual cues and constancies, and digital wayfinding decision junctions. Through a "looking out from the inside" approach, the findings have valuable implications for academics, senior-friendly environments, government policymakers, hospitality and healthcare industries.
Age-related digital disparities, functional limitations, and social isolation: unraveling the grey digital divide between baby boomers and the silent generation in senior living facilities

Chee SY

Aging Ment Health, 2024 Apr;28(4):621-632.
PMID: 37424361 DOI: 10.1080/13607863.2023.2233454

OBJECTIVES: The onset of the digital age has sparked a significant age-related digital divide, detrimentally affecting older adults. The age-related digital disparities and the gray digital divide between the Baby Boomers and the Silent Generation in senior living facilities remains an exigent issue. This study explored the lived experiences of older adults as they confront the challenges posed by age-related digital disparities inherent in the gray digital divide in senior living facilities.
METHODS: In-depth, semi-structured interviews and observations were conducted with 28 older adults living in six senior living facilities in three urban locations. Moustakas's transcendental phenomenology was employed, and the Modified Stevick-Colaizzi-Keen method was used to analyze the data.
RESULTS: This study identified six main themes: barriers to connectivity, digital literacy, generational-rooted perceptions, navigating technology with functional limitations, social isolation, and end-of-life planning.
CONCLUSION: The gray digital divide disproportionately affects older adults in senior living facilities. The study emphasizes the need for tailored interventions and targeted support to address the specific needs of each cohort and reduce age-related disparities. Addressing these disparities has significant implications for academics, policy-makers, senior living accommodations, and technology developers.
"Savoring the Past, Nourishing the Present": Uncovering the Essence of Multicultural Mealtime Experiences in Senior Living Facilities

Chee SY

J Gerontol Soc Work, 2024 Apr;67(3):322-348.
PMID: 37786389 DOI: 10.1080/01634372.2023.2264894

Mealtimes are crucial markers of daily schedules and hold significant meaning for older adults in senior living facilities worldwide, extending beyond the food served. Utilizing Moustakas' transcendental phenomenological approach, this study explores the lived experiences and multifaceted meanings of mealtimes for older adults from multicultural backgrounds in senior living facilities in Malaysia. In six urban senior living facilities, 28 older adults from Malaysia's three major ethnic groups, namely Bumiputera Malays, Chinese, and Indians were interviewed through semi-structured one-on-one interviews. Five discernible themes beyond tangible aspects emerged: mealtimes as cultural bridges, memories and palate, emotional bonds through food, quality control and consumption, and comfort through personalized dining experience. This study raises awareness among senior-living facilitators, family caregivers, academics, and policymakers to acknowledge the evident complexities of mealtimes for older adults living away from the comfort of familiarity. Future research should consider the active involvement of all stakeholders in co-creating and implementing interventions that enhance older adults' mealtime experiences in senior-friendly establishments.
DNA barcoding reveals neritid diversity (Mollusca: Gastropoda) diversity in Malaysian waters

Chee SY, Mohd Nor SA

Mitochondrial DNA A DNA Mapp Seq Anal, 2016 05;27(3):2282-4.
PMID: 25471442 DOI: 10.3109/19401736.2014.987237

This is the first study to identify and determine the phylogenetics of neritids found in Malaysia. In total, twelve species from the family Neritidae were recorded. Ten species were from the genus Nerita and two species were from the genus Neritina. DNA barcodes were successfully assigned to each species. Although some of these species were previously reported in the region, three are only presently reported in this study. The dendrogram showed Nerita and Neritina strongly supported in their respective monophyletic clades. Phylogenetic positions of some species appeared unstable in the trees. This could be due to the differences in a small number of nucleotides, thus minimizing genetic variation between each specimen and species.
Fulltext Phylogenetic study and barcoding of the blood cockle, Tegillarca granosa, found on the west coast of peninsular Malaysia using the COI gene

Chee SY, Devakie MN, Siti Azizah MN

Genet. Mol. Res., 2011;10(2):1237-44.
PMID: 21732288 DOI: 10.4238/vol10-2gmr1104

Blood cockles are among the most economically important brackish water invertebrates found in Malaysia. However, our knowledge of blood cockle phylogeny and systematics is rudimentary, especially for the species Tegillarca granosa. It is unclear, for instance, whether the cockles occurring on the west coast of peninsular Malaysia constitute a single species, or multiple, phylogenetically distinct species. We performed the first DNA molecular phylogenetic analysis of T. granosa to distinguish it from other related species found in other parts of the world and to create a DNA database for the species. An approximately 585-nucleotide fragment of the mitochondrial DNA (cytochrome oxidase I, COI) was sequenced for 150 individual cockles, representing 10 populations: three from the north, four from the central part and three from the southern part of peninsular Malaysia. Phylogenetic analyses of the resulting dataset yielded tree topologies that not only showed the relationship between T. granosa and its closest relatives but its position in the evolutionary tree. Three mitochondrial clades were evident, each containing an individual genus. Using the mutation rate of the COI gene, the divergence time between T. granosa and its closest related species was estimated to be 460 thousand years ago. This study provides a phylogenetic framework for this ecologically prominent and commercially important cockle species.
Fulltext Utilization of molecular markers for the conservation of blood cockles, Anadara granosa (Arcidae)

Chee SY, Azizah MN, Devakie MN

Genet. Mol. Res., 2011;10(2):1245-61.
PMID: 21732289 DOI: 10.4238/vol10-2gmr1103

We examined genetic variation in blood cockles in an effort to obtain information useful for the sustainability, management, and the stability of this species as a major commodity in the fisheries sector. Ten populations of cockles were sampled from the north to the south of the west coast of peninsular Malaysia. The cockles were collected in collaboration with the Fisheries Research Institute, Penang. The population genetic analysis of the cockles were studied via RAPD-PCR and mtDNA sequencing. Three hundred individuals were analyzed with RAPD-PCR experiments. High gene diversity over all loci was observed (Shannon index = 0.549 ± 0.056 and Nei's gene diversity = 0.4852 ± 0.0430 among 35 loci). The second method, mtDNA sequencing, was employed to complement the information obtained from RAPD-PCR. The gene selected for mtDNA sequencing was cytochrome c oxidase I (COI). One hundred and fifty individuals were sequenced, yielding a partial gene of 585 bp. Statistical analysis showed homogeneity in general but did reveal some degree of variability between the populations in Johor and the rest of the populations. The Mantel test showed a positive but nonsignificant correlation between geographic and genetic distances (r = 0.2710, P = 0.622), as in the RAPD analysis. We propose that the homogeneity between distant populations is caused by two factors: 1) the translocation of the spats; 2) larvae are carried by current movement from the north of the peninsula to the south. The different genetic composition found in Johor could be due to pollution, mutagenic substances or physical factors such as the depth of the water column. This population genetic study is the first for this species in peninsular Malaysia. The data from this study have important implications for fishery management, conservation of blood cockles and translocation policies for aquaculture and stock enhancement programs.
The ideal measurement of the quality of life in post stroke patients: an urban study

Samsiah M, Das S, Chee SY, Rashidah R, Siti H, Ruth P, et al.

Clin Ter, 2011;162(3):209-15.
PMID: 21717044

There is paucity of literature on the measurement of the quality of life in post stroke patients in the developing countries. The main objective of this study was to determine the quality of life (QOL) of post stroke patients.
Fulltext Thermal Performance Study of Composite Phase Change Material with Polyacrylicand Conformal Coating

Kee SY, Munusamy Y, Ong KS, Cornelis Metselaar HS, Chee SY, Lai KC

Materials (Basel), 2017 Jul 28;10(8).
PMID: 28773232 DOI: 10.3390/ma10080873

The composite PCM was prepared by blending polymethyl methacrylate (PMMA) and myristic acid (MA) in different weight percentages. The MA and PMMA were selected as PCM and supporting material, respectively. As liquid MA may leak out during the phase transition, this study proposes the use of two coatings, namely a polyacrylic coating and a conformal coating to overcome the leakage problem. Both coatings were studied in terms of the leakage test, chemical compatibility, thermal stability, morphology, and reliability. No leakage was found in the PCMs with coatings compared to those without under the same proportions of MA/PMMA, thus justifying the use of coatings in the present study. The chemically compatibility was confirmed by FTIR spectra: the functional groups of PCMs were in accordance with those of coatings. DSC showed that the coatings did not significantly change the melting and freezing temperatures, however, they improved the thermal stability of composite PCMs as seen in TGA analysis. Furthermore, the composite PCMs demonstrated good thermal reliability after 1000 times thermal cycling. The latent heat of melting reduced by only 0.16% and 1.02% for the PCMs coated with conformal coating and polyacrylic coating, respectively. Therefore, the proposed coatings can be considered in preparing fatty acid/PMMA blends attributed to the good stability, compatibility and leakage prevention.
Between the devil and the deep blue sea: Trends, drivers, and impacts of coastal reclamation in Malaysia and way forward

Chee SY, Tan ML, Tew YL, Sim YK, Yee JC, Chong AKM

Sci Total Environ, 2023 Feb 01;858(Pt 2):159889.
PMID: 36328260 DOI: 10.1016/j.scitotenv.2022.159889

Cities all over the world are edging further into the ocean. Coastal reclamation is a global conservation issue with implications for ocean life, ecosystems, and human well-being. Using Malaysia as a case study, the coastal reclamation trends over three decades (1991-2021) were mapped using Landsat images and Normalized Difference Water Index (NDWI) via the Google Earth Engine platform. The changes in drivers and impacts of these coastal expansions throughout the decades were also reviewed. Twelve out of the 14 states in Malaysia had planned, active, or completed reclamations on their shorelines. Between 1991 and 2021, an absolute area of 82.64 km2 has been or will be reclaimed should all the projects be completed. The most reported driver for coastal expansion in Malaysia is for development and modernization (41 %), followed by rise in human population (20 %), monetary gains from the development of prime land (15 %), and agriculture and aquaculture activities (9 %). Drivers such as reduction of construction costs, financial advantage of prime land, oil and gas, advancement of technology, and tourism (Malaysia My Second Home (MM2H)) had only started occurring within the last decade, while others have been documented since the 1990's. Pollution is the most reported impact (24 %) followed by disruption of livelihoods, sources of income and human well-being (21 %), destruction of natural habitats (17 %), decrease in biodiversity (11 %), changes in landscapes (10 %), erosion / accretion (8 %), threat to tourism industry (6 %), and exposure to wave surges (3 %). Of these, changes in landscape, shoreline alignment, seabed contour, and coastal groundwater, as well as wave surges had only started to surface as impacts in the last two decades. Efforts to protect existing natural coastal and marine ecosystems, restore degraded ones, and fund endeavours that emphasize nature is needed to support sustainable development goals for the benefit of future generations.
Urban blue: A global analysis of the factors shaping people's perceptions of the marine environment and ecological engineering in harbours

Strain EMA, Alexander KA, Kienker S, Morris R, Jarvis R, Coleman R, et al.

Sci Total Environ, 2019 Mar 25;658:1293-1305.
PMID: 30677991 DOI: 10.1016/j.scitotenv.2018.12.285

Marine harbours are the focus of a diverse range of activities and subject to multiple anthropogenically induced pressures. Support for environmental management options aimed at improving degraded harbours depends on understanding the factors which influence people's perceptions of harbour environments. We used an online survey, across 12 harbours, to assess sources of variation people's perceptions of harbour health and ecological engineering. We tested the hypotheses: 1) people living near impacted harbours would consider their environment to be more unhealthy and degraded, be more concerned about the environment and supportive of and willing to pay for ecological engineering relative to those living by less impacted harbours, and 2) people with greater connectedness to the harbour would be more concerned about and have greater perceived knowledge of the environment, and be more supportive of, knowledgeable about and willing to pay for ecological engineering, than those with less connectedness. Across twelve locations, the levels of degradation and modification by artificial structures were lower and the concern and knowledge about the environment and ecological engineering were greater in the six Australasian and American than the six European and Asian harbours surveyed. We found that people's perception of harbours as healthy or degraded, but not their concern for the environment, reflected the degree to which harbours were impacted. There was a positive relationship between the percentage of shoreline modified and the extent of support for and people's willingness to pay indirect costs for ecological engineering. At the individual level, measures of connectedness to the harbour environment were good predictors of concern for and perceived knowledge about the environment but not support for and perceived knowledge about ecological engineering. To make informed decisions, it is important that people are empowered with sufficient knowledge of the environmental issues facing their harbour and ecological engineering options.

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