MyMedR

Displaying publications 161 - 180 of 216 in total

Abstract:

Sort:

Fulltext Towards complete and error-free genome assemblies of all vertebrate species

Rhie A, McCarthy SA, Fedrigo O, Damas J, Formenti G, Koren S, et al.

Nature, 2021 Apr;592(7856):737-746.
PMID: 33911273 DOI: 10.1038/s41586-021-03451-0

High-quality and complete reference genome assemblies are fundamental for the application of genomics to biology, disease, and biodiversity conservation. However, such assemblies are available for only a few non-microbial species1-4. To address this issue, the international Genome 10K (G10K) consortium5,6 has worked over a five-year period to evaluate and develop cost-effective methods for assembling highly accurate and nearly complete reference genomes. Here we present lessons learned from generating assemblies for 16 species that represent six major vertebrate lineages. We confirm that long-read sequencing technologies are essential for maximizing genome quality, and that unresolved complex repeats and haplotype heterozygosity are major sources of assembly error when not handled correctly. Our assemblies correct substantial errors, add missing sequence in some of the best historical reference genomes, and reveal biological discoveries. These include the identification of many false gene duplications, increases in gene sizes, chromosome rearrangements that are specific to lineages, a repeated independent chromosome breakpoint in bat genomes, and a canonical GC-rich pattern in protein-coding genes and their regulatory regions. Adopting these lessons, we have embarked on the Vertebrate Genomes Project (VGP), an international effort to generate high-quality, complete reference genomes for all of the roughly 70,000 extant vertebrate species and to help to enable a new era of discovery across the life sciences.

Matched MeSH terms: Birds
Occurrence of Cryptosporidium oocysts in Wrinkled Hornbill and other birds in the Kuala Lumpur National Zoo

Rohela M, Lim YA, Jamaiah I, Khadijah PY, Laang ST, Nazri MH, et al.

Southeast Asian J. Trop. Med. Public Health, 2005;36 Suppl 4:34-40.
PMID: 16438177

The occurrence of a coccidian parasite, Cryptosporidium, among birds in the Kuala Lumpur National Zoo was investigated in this study. A hundred bird fecal samples were taken from various locations of the zoo. Fecal smears prepared using direct smear and formalin ethyl acetate concentration technique were stained with modified Ziehl-Neelsen stain. Samples positive for Cryptosporidium with Ziehl-Neelsen stain were later confirmed using the immunofluorescence technique and viewed under the epifluorescence microscope. Six species of bird feces were confirmed positive with Cryptosporidium oocysts. They included Wrinkled Hornbill (Aceros corrugatus), Great Argus Pheasant (Argusianus argus), Black Swan (Cygnus atratus), Swan Goose (Anser cygnoides), Marabou Stork (Leptoptilos crumeniferus), and Moluccan Cockatoo (Cacatua moluccencis). These birds were located in the aviary and lake, with the Moluccan Cockatoo routinely used as a show bird. Results obtained in this study indicated that animal sanctuaries like zoos and bird parks are important sources of Cryptosporidium infection to humans, especially children and other animals.

Matched MeSH terms: Birds/parasitology*
Fulltext A Plasmodium sp. from a glossy tree-starling (Aplonis panayensis strigatus)

SANDOSHAM AA, BENNETT GF, FONG YL, OMAR EI

Singapore Med J, 1965 Mar;6(1):47-8.
PMID: 14306412

An immature Glossy Tree-Starling (Aplonis panayensis strigatus), also known as ‘burong perling’ in Malay, was captured in the vicinity of the Institute for Medical Research, Kuala Lumpur. It was found to harbour a small malaria parasite which showed the characteristics of the sub-genus Novyella (Corradetti et al, 1963) viz:
1. Trophozoites small with little cytoplasm, relatively large nuclear elements, the parasite usually applied to the host-cell nucleus.
2. Schizonts with usually less than eight merozoites. 3. Pigment small and difficult to see except in the schizonts and in the gametocytes where the pigment granules are large and usually clustered at one end.
4. The parasite rarely distorts the host erythrocyte. Unfortunately the bird died a few days later before detailed work on duration of the schizogonic cycle and experimental transmission could be done. The parasite has the following morphological features and most of the larger forms, asexual and sexual, assume the characteristic position proximal to the nucleus of the avian erythrocyte. Trophozoites: The earliest forms are ‘rings’ with a fairly marked vacuole. As the organism grows older, it produces a grain or two of pigment. The parasite at this stage tends to occupy a polar position in the host erythrocyte. Schizonts: The segmenting forms are usually attached to the pole end of the host-cell nucleus. The number of chromatin segments varies from 3 to 8, with a prevalent range of 4 to 6. The cytoplasm is scanty and pale with a prominent little mass of blackish-brown pigment or a close collection of granules. A rare mature schizont with 8 merozoites was seen in which the nucleus of the parasitised erythrocyte was displaced somewhat similar to ﬁgure 20 of Plate I portrayed in the original paper by Manwell (1935). Gametocytes: The sexual forms are often narrow and elongate, and are closely applied to the nucleus of the host erythrocyte. The outline of the parasite is frequently irregular. The cytoplasm is pale and vacuolated with coarse conspicuous granules of blackish-brown pigment usually collected at one end; sometimes either one or both ends curved around the host-cell nucleus. Although this parasite has some affinites to both P. nucleophiltim and P. hexamerium the lack of adequate study of the avian malarias of South-East Asia precludes even provisional identiﬁcation of this parasite. On two occasions numerous gametocytes were seen in the peripheral blood of the bird and four species of laboratory-reared culicines (three indigenous to Malaya) were allowed to feed on it. Ten Andes togoi, 19 Culex sitiens and seven Culex fatigans were completely refractory to development of the parasite. Two of 17 Aedes aegypti had a single small oocyst each; both oocysts appeared to be degenerating. A Giemsa-stained thin blood ﬁlm together with drawings made from the microscope showing the different forms of the parasite were demonstrated. REFERENCES
Corradetti, A., Garnham, P. C. & Laird, M. (i963). Parassitologia, 5, 1-4.
Manwell, R. D. (l935). Amer. J. Trop. Med 15, 265-283.
...(1938). Ibid., 18, 565-575

Matched MeSH terms: Birds*
Three pollination guilds and variation in floral characteristics of Bornean gingers (Zingiberaceae and Costaceae)

Sakai S, Kato M, Inoue T

Am J Bot, 1999 May;86(5):646-58.
PMID: 10330067

The pollinators of 29 ginger species representing 11 genera in relation to certain floral morphological characteristics in a mixed-dipterocarp forest in Borneo were investigated. Among the 29 species studied, eight were pollinated by spiderhunters (Nectariniidae), 11 by medium-sized Amegilla bees (Anthophoridae), and ten by small halictid bees. These pollination guilds found in gingers in Sarawak are comparable to the pollination guilds of neotropical Zingiberales, i.e., hummingbird-, and euglossine-bee-pollinated guilds. Canonical discriminant analysis revealed that there were significant correlations between floral morphology and pollination guilds and suggests the importance of plant-pollinator interactions in the evolution of floral morphology. Most species in the three guilds were separated on the plot by the first and second canonical variables. Spiderhunter-pollinated flowers had longer floral tubes, while Amegilla-pollinated flowers had wider lips than the others, which function as a platform for the pollinators. Pistils and stamens of halictid-pollinated flowers were smaller than the others. The fact that gingers with diverse morphologies in a forest with high species diversity were grouped into only three pollination guilds and that the pollinators themselves showed low species diversity suggests that many species of rare understory plants have evolved without segregating pollinators in each pollination guild.

Matched MeSH terms: Birds
A new pollination system: dung-beetle pollination discovered in Orchidantha inouei (Lowiaceae, Zingiberales) in Sarawak, Malaysia

Sakai S, Inoue T

Am J Bot, 1999 Jan;86(1):56-61.
PMID: 21680345

Lowiaceae, a family of the Zingiberales, comprise 11 species in the single genus Orchidantha. Here we present the first report on the pollination of Lowiaceae and describe a new system of dung-beetle pollination from Sarawak, Borneo. Orchidantha inouei has a zygomorphic flower located just above the ground. Observations revealed that the plant is visited frequently and is pollinated by scarabaeid dung beetles, mainly members of the genus Onthophagus. All four species of Onthophagus collected on O. inouei have also been caught using traps baited with dung or carrion in Borneo. Onthophagus was presumably attracted to the dung-like odor of the flower. Pollination of O. inouei is different from other examples of beetle pollination in that its flower provides neither reward nor protected space. Dung beetles are excellent at following a particular dung scent. Orchidantha is the only genus that includes species lacking floral nectar. It is interesting that this deception pollination using dung beetles was found in Zingiberales, in which all known species have mutual and specialized relationships with their long-distance, but costly, pollinators-bees, birds, and bats.

Matched MeSH terms: Birds
Fulltext Plasmodium-a brief introduction to the parasites causing human malaria and their basic biology

Sato S

J Physiol Anthropol, 2021 Jan 07;40(1):1.
PMID: 33413683 DOI: 10.1186/s40101-020-00251-9

Malaria is one of the most devastating infectious diseases of humans. It is problematic clinically and economically as it prevails in poorer countries and regions, strongly hindering socioeconomic development. The causative agents of malaria are unicellular protozoan parasites belonging to the genus Plasmodium. These parasites infect not only humans but also other vertebrates, from reptiles and birds to mammals. To date, over 200 species of Plasmodium have been formally described, and each species infects a certain range of hosts. Plasmodium species that naturally infect humans and cause malaria in large areas of the world are limited to five-P. falciparum, P. vivax, P. malariae, P. ovale and P. knowlesi. The first four are specific for humans, while P. knowlesi is naturally maintained in macaque monkeys and causes zoonotic malaria widely in South East Asia. Transmission of Plasmodium species between vertebrate hosts depends on an insect vector, which is usually the mosquito. The vector is not just a carrier but the definitive host, where sexual reproduction of Plasmodium species occurs, and the parasite's development in the insect is essential for transmission to the next vertebrate host. The range of insect species that can support the critical development of Plasmodium depends on the individual parasite species, but all five Plasmodium species causing malaria in humans are transmitted exclusively by anopheline mosquitoes. Plasmodium species have remarkable genetic flexibility which lets them adapt to alterations in the environment, giving them the potential to quickly develop resistance to therapeutics such as antimalarials and to change host specificity. In this article, selected topics involving the Plasmodium species that cause malaria in humans are reviewed.

Matched MeSH terms: Birds
Fulltext Isolation of Mycobacterium avium and other nontuberculous mycobacteria in chickens and captive birds in peninsular Malaysia

Sattar A, Zakaria Z, Abu J, Aziz SA, Rojas-Ponce G

BMC Vet Res, 2021 Jan 07;17(1):13.
PMID: 33413380 DOI: 10.1186/s12917-020-02695-8

BACKGROUND: Mycobacterium avium complex (MAC) causes a chronic infectious in the birds known as avian mycobacteriosis. Almost all species of the birds are susceptible to MAC which consists of two closely related species of mycobacteria, that is, M. avium and M. intracellulare. This study aimed to determine the occurrence of Mycobacterium avium subsp. avium (MAA) in chickens and captive birds in selected states of Peninsular Malaysia.
RESULTS: A 300 fecal samples were collected from village chickens (n = 100), layer chickens (n = 100) and captive birds (n = 100). Fecal samples were split into two aliquots for microbiological and molecular detection of MAA. Microbiology detection consisted of microscopy (Ziehl-Neelsen staining) and culture of samples decontaminated with 1% Cetylperidinium chloride and vancomycin, nalidixic acid and amphotericin B (VNA) antibiotic cocktail [vancomycin (VAN) 100 μg/ml, nalidixic acid (NAL) 100 μg/ml and amphotericin B (AMB) 50 μg/ml] onto Löwenstein-Jensen (L-J). Molecular detection (PCR-IS901) was performed to detect MAA DNA from the feces and PCR-16S rRNA and IS901 for identification of genus Mycobacterium and Mycobacterium avium sub species avium isolated onto L-J. All samples (296) were AFB negative smear. M. avium was isolated in 0.3% (1/296) samples by culture and detected in 2.5% (6/242) samples by PCR (IS901). Other mycobacteria were found in 1.7% (5/296) chickens. Of five isolates, two were identified as Mycobacterium terrae and M. engbaekii and remaining isolates were not sequenced. Birds positive for M. avium included White Pelican (n = 1) Black Hornbill (n = 1), Macaw (n = 2), Cockatoo (n = 2) and village chicken (n = 1).
CONCLUSION: It is concluded that chickens and birds were infected with M. avium in selected areas of Peninsular Malaysia. Although, PCR is rapid, reliable and cost effective method for detection of M. avium in a subclinical stage, the culture of the avian feces should still be used as a reference test for the diagnosis of avian tuberculosis.

Matched MeSH terms: Birds
Nematode parasites of Oceanica. XVII. Schistorophidae, Spiruridae, Physalopteridae and Trichostrongylidae of birds

Schmidt GD, Kuntz RE

Parasitology, 1972 Apr;64(2):269-78.
PMID: 5018479
Matched MeSH terms: Birds*
Nematode parasites of Oceanica. XVI. Cordonema venusta gen. et. sp.nov., and Skrjabinoclava spp. (Acuariidae: Echinuriinae), from birds

Schmidt GD, Kuntz RE

Parasitology, 1972 Apr;64(2):235-44.
PMID: 5018477
Matched MeSH terms: Birds*
Nematode parasites of Oceanica. 8. Filariids of birds, with a new genus and four new species

Schmidt GD, Kuntz RE

Parasitology, 1970 Apr;60(2):313-26.
PMID: 5427102
Matched MeSH terms: Birds*
Seed dispersal and spatial pattern in tropical trees

Seidler TG, Plotkin JB

PLoS Biol, 2006 Oct;4(11):e344.
PMID: 17048988

Theories of tropical tree diversity emphasize dispersal limitation as a potential mechanism for separating species in space and reducing competitive exclusion. We compared the dispersal morphologies, fruit sizes, and spatial distributions of 561 tree species within a fully mapped, 50-hectare plot of primary tropical forest in peninsular Malaysia. We demonstrate here that the extent and scale of conspecific spatial aggregation is correlated with the mode of seed dispersal. This relationship holds for saplings as well as for mature trees. Phylogenetically independent contrasts confirm that the relationship between dispersal and spatial pattern is significant even after controlling for common ancestry among species. We found the same qualitative results for a 50-hectare tropical forest plot in Panama. Our results provide broad empirical evidence for the importance of dispersal mode in establishing the long-term community structure of tropical forests.

Matched MeSH terms: Birds/physiology
REPORT- Some ethanobotanically important plants from Cholistan area for anti avian influenza virus (AIV) H9N2 screening

Shahzad MI, Ashraf H, Aslam A, Parveen S, Kamran Z, Naz N, et al.

Pak J Pharm Sci, 2019 Nov;32(6):2751-2756.
PMID: 31969311

Avian influenza or bird flu is a common problem of domestic and wild birds. Some of its strains are able to cross the species barrier and cause infection in various members of class Mammalia. In view of relatively lesser efficacy of vaccines, antiviral therapies remain the only choice for the sustenance of mammals acquiring this highly devastating infection. This study is based on the evaluation of antiviral potential of methanol extracts of eleven selected Cholistani plants. The methanol extracts were prepared by using dried plants material followed by concentrating in a rotary evaporator and finally air dried before dissolving in nanopure water. The suspension was filter sterilized and subjected to in ovo antiviral assays. The allantoic fluids were harvested and haemagglutinin (HA) titers were determined. Among the eleven plants evaluated all methanol extracts were found effective against AIV H9N2 except S. baryosma extract. The medicinal plants O. compressa, N. procumbens, and S. surattense were found to be more effective than others and they retained HA titers at 0 after challenge. The next in order were extracts of O. esculentum, H. salicornicum and S. fruticosa which kept HA titers at 4, 8 and 16 respectively. The extracts of H. recurvum, P. antidotale, S. icolados and A. aspera were found less effective than above mentioned plant extracts and they kept the HA titers at 32, 64, 128 and 256 respectively. These results led us to conclude that the medicinal plants of Cholistan region are a rich source of antiviral agent(s) against AIV H9N2 and could be a source of cost effective alternate therapeutics.

Matched MeSH terms: Influenza in Birds/drug therapy; Influenza in Birds/virology
A review on emerging diagnostic assay for viral detection: the case of avian influenza virus

Shojaei TR, Tabatabaei M, Shawky S, Salleh MA, Bald D

Mol Biol Rep, 2015 Jan;42(1):187-99.
PMID: 25245956 DOI: 10.1007/s11033-014-3758-5

Biotechnology-based detection systems and sensors are in use for a wide range of applications in biomedicine, including the diagnostics of viral pathogens. In this review, emerging detection systems and their applicability for diagnostics of viruses, exemplified by the case of avian influenza virus, are discussed. In particular, nano-diagnostic assays presently under development or available as prototype and their potentials for sensitive and rapid virus detection are highlighted.

Matched MeSH terms: Birds/virology; Influenza in Birds/diagnosis; Influenza in Birds/virology*
Bird-related eye injuries

Shriwas SR

Trop Doct, 1993 Jul;23(3):140.
PMID: 8356755
Matched MeSH terms: Birds*
Artificial wetlands and water quality improvement

Shutes RB

Environ Int, 2001 May;26(5-6):441-7.
PMID: 11392764

This paper illustrates the role of plants to assist the treatment of water pollution in man-made wetlands in tropical and temperate climates. It also considers the potential for environmental education of these wetland systems. The management and natural treatment of pollution is described in the Mai Po Marshes, Hong Kong and a wetland in London which is also an important site for birds. The design of the Putrajaya Lake and Wetland system in Malaysia is compared with a constructed wetland and lake for the treatment of urban surface runoff in a new residential development in the United Kingdom. The benefits of these natural systems are discussed in the context of the global trend for introducing sustainable methods of environmental management and low cost pollution treatment systems.

Matched MeSH terms: Birds
Japanese encephalitis in Sarawak: virus isolation and serology in a Land Dyak village

Simpson DI, Bowen ET, Platt GS, Way H, Smith CE, Peto S, et al.

Trans R Soc Trop Med Hyg, 1970;64(4):503-10.
PMID: 4394986
Matched MeSH terms: Birds
Lessons learned from Asian H5N1 outbreak control

Sims LD

Avian Dis, 2007 Mar;51(1 Suppl):174-81.
PMID: 17494550

Numerous lessons have been learned so far in controlling H5N1 avian influenza in Asia. Early detection of incursions of virus prevented establishment of the disease in several countries, notably Japan, South Korea, and Malaysia. In countries where detection of early cases was delayed, infection is endemic and has been for three or more years. Control measures implemented in these countries need to reflect this finding. Vaccination will continue to be one of the key measures used in these endemically infected countries. Used alone, vaccination will not result in elimination of H5N1 viruses from a country, but, if used correctly, it will markedly reduce the prevalence of and susceptibility to infection. Vaccination has already played a valuable role in reducing the adverse effects of H5N1 viruses. Mass culling also reduces the level of infection in infected areas. However, the long-term benefits are limited in endemically infected countries owing to the high probability of reinfection on restocking unless other measures are used in parallel. Full epidemiological studies have not been conducted in many infected countries. Nevertheless, it is recognized that the number of clinical cases does not truly reflect the levels of infection. Domestic ducks and large live poultry markets have played a key role in the persistence of infection, because they can be infected silently. In tackling this disease, countries should adopt integrated control programs using the combination of measures best suited to the local environment. All surveillance data should be shared, both positive and negative, and should include information on cases of infection and disease. Socioeconomic and ecological implications of all control measures should be assessed before implementation, especially the impact on the rural poor.

Matched MeSH terms: Birds; Influenza in Birds/epidemiology*; Influenza in Birds/prevention & control; Influenza in Birds/virology*
A new record of Platynosomum proxilliciens in Malaysian crows (Trematoda: Dicrocoeliidae)

Singh M, Sinniah B

Southeast Asian J. Trop. Med. Public Health, 1980 Mar;11(1):148.
PMID: 7403950
Matched MeSH terms: Birds/parasitology*
Leucochloridium dasylophi Tubangui 1928 in Malaysian water fowl (Leucochloriidae)

Sinniah B

Southeast Asian J. Trop. Med. Public Health, 1980 Mar;11(1):145.
PMID: 7403948
Matched MeSH terms: Birds/parasitology*
Acanthocephala from Malaysian water fowl

Sinriah B, Poopalachelvam M

Southeast Asian J. Trop. Med. Public Health, 1980 Mar;11(1):143.
PMID: 7403946
Matched MeSH terms: Birds/parasitology*

Filters

Please provide feedback to Administrator (afdal@afpm.org.my)

External Links