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PubMed2025

Genomic insights into Shigella species isolated from small ruminants and manure in the North West Province, South Africa.

This study investigated Shigella species' antibiotic resistance patterns and genomic characteristics from small ruminants and manure collected in Potchefstroom, North West, South Africa. Whole genome sequencing was used to determine resistome profiles of Shigella flexneri isolates from small ruminants' manure and Shigella boydii from sheep faeces. Comparative genomics was employed on the South African 261 S. flexneri strains available from GenBank, including the sequenced strains in this study, by investigating the serovars, antibiotic resistance genes (ARGs), and plasmid replicon types. The S. flexneri strains could not be assigned to known sequence types, suggesting novel or uncharacterized lineages. S. boydii R7-1A was assigned to sequence type 202 (ST202). Serovar 2A was the most common among South African S. flexneri strains, found in 96% of the 250 compared human-derived isolates. The shared mdf(A) was the most prevalent gene, identified in 99% of 261 S. flexneri genomes, including plasmid replicon types ColRNAI_1 (99%) and IncFII_1 (98%). Both species share a core set of resistance determinants mainly involving β-lactams (ampC1, ampC, ampH), macrolides (mphB), polymyxins (eptA, pmrF), multidrug efflux pumps (AcrAB-TolC, Mdt, Emr, Kpn families), and regulatory systems (marA, hns, crp, baeRS, evgAS, cpxA, gadX). However, S. boydii possesses additional resistance genes conferring resistance to tetracyclines (tet(A)), phenicols (floR), sulphonamides (sul2), and aminoglycosides (APH(3'')-Ib, APH(6)-Id), along with the acrEF efflux pump components (acrE, acrF). In contrast, S. flexneri harboured unique genes linked to polymyxin resistance (ugd) and regulatory functions (sdiA, gadW) that were absent in S. boydii. These findings highlight Shigella strains' genomic diversity and antimicrobial resistance potential in livestock-associated environments. Moreover, S. boydii highlights the potential risk of multidrug-resistant bacteria in farming and environmental routes. KEY POINTS: • First whole genome study of Shigella from manure and small ruminants in South Africa. • Shigella boydii strain carried multiple resistance genes to β-lactams and tetracycline. • Multidrug efflux pump gene mdf(A) was detected in 99% of South African Shigella flexneri strains.

Animals↗
PubMed2003

The effects of war on children in Africa.

There is no doubt that the effects of war extend to the most vulnerable members of society, including children. Although armed conflicts occur throughout the world, the African continent seems to be a particular background for civil and international wars. The aim of this study was to identify causes of conflict in Africa and to evaluate the effect of war on children and their health in order to make practical recommendations to health care workers dealing with children in the setting of war. All articles written in the past 5 years concerning "war" and "children" were identified by means of a literature search and internet review. Contrary to common belief, the causes of conflict are complicated and multi-factorial. The effects of war on childhood are disastrous and include severe negative effects on general paediatric health status. Short-term recommendations for health care workers working with children in war include supply of emergency medical infrastructures, basic health care, rehabilitation and education. Long-term recommendations include orchestrating the relief and support efforts from both national governments and international non-profit organisations and speeding up of economic recovery. The causes of conflict in Africa are complex and unlikely to be resolved soon. The effects of war on children are horrendous in many ways, but can be limited by providing timely and appropriate health care.

Africa↗
PubMed2001

Pediatric surgery in sub-Saharan Africa.

Pediatric surgery in sub-Saharan Africa is disadvantaged by the large number of sick children, disease patterns specific to the region, late presentation, and advanced pathology. In addition, it is practiced in an environment of limited resources and facilities and other health priorities. Obstacles to better pediatric-surgical care (PSC) include a general lack of interest in surgical conditions affecting African children, its poorly defined role, and a lack of political commitment by governments and international agencies to see surgical care of children improve. Pediatric-surgical practice in Africa must be cognizant of the factors that limit delivery of surgical services and work toward developing cost-effective strategies that benefit the largest number of children. Demonstrating that childhood surgical conditions are a significant public health-care problem is the most likely way to change health-care policy and to ensure adequate resources for PSC. Other priorities should be to define a cost-effective package of pediatric surgical services, improve PSC at the community level, and strengthen pediatric surgical-education.

Africa South of the Sahara↗
PubMed2006

Genetic variability of Tunga penetrans (Siphonaptera, Tungidae) sand fleas across South America and Africa.

Tunga penetrans is a widely distributed sand flea, infecting men and domestic animals. It originated in South America, but it is now also endemic of Sub-Saharan Africa due to a recent accidental introduction. Previous genetic analyses indicated a very limited variability in the Ecuadorian populations; on the other hand, samples from Madagascar resulted to be genetically isolated. To better examine the genetic variability of T. penetrans, a wider sampling was analysed for mitochondrial (cytochrome oxidase II) and nuclear (ribosomal internal transcribed spacer [ITS] 2) DNA sequences. The mitochondrial marker confirms the low genetic variability, with few haplotypes characterizing the majority of individuals from different populations. Haplotype distribution is in agreement with a recent colonization of Africa and with a rapid spreading across this continent. Moreover, a consistent gene flow between the Pacific and Atlantic South American populations emerges, possibly due to human and/or animal cross-Andean dispersal. On the other hand, the ITS2 marker depicts a sharply diverging pattern with samples collected in Ecuador unequivocally distinguished from the Brazilian and African ones. On the whole, taking into account also the molecular features of the marker used, data here presented are better interpreted in the light of a high dispersal ability of T. penetrans, probably reducing the phylogeographic signal.

Africa↗
PubMed1997

Oculocutaneous albinism (OCA2) in sub-Saharan Africa: distribution of the common 2.7-kb P gene deletion mutation.

Oculocutaneous albinism (OCA2) is the most common autosomal recessive disorder in the South African Negroid population, occurring with a prevalence of 1/3900 individuals. The OCA2 locus, P, has been mapped to chromosome 15q11-q13 and a 2.7-kb interstitial deletion has been found to be the common mutation in Africa. This study reports the detection of the deletion allele in OCA2-affected individuals from the southern African, Zambian and Central African Republic (CAR) Negroid populations (0.77, 131/170 OCA2 chromosomes; 0.79, 11/14; 0.33, 4/12, respectively). Normally pigmented individuals from different African countries were also tested. The deletion mutation was found at a frequency of 0.013 (10/780) in the normally pigmented southern African Negroid population and at a lower frequency in individuals from central Africa (0.002; 2/834), including individuals from Zambia, Cameroon, Zaire and the CAR. The study confirms the African origin of this deletion allele. Haplotype analysis suggests that the deletion mutation probably occurred only once and that it arose before the divergence of these African populations, which is estimated to be about 2000-3000 years ago. The unusually high frequency of OCA2 mutations, in particular the 2.7-kb deletion, suggests some selective agent or genetic drift.

Africa South of the Sahara↗
PubMed2005

Molecular epidemiology of African swine fever in East Africa.

African swine fever (ASF) a lethal, viral hemorrhagic disease of domestic pigs, first reported from East Africa in 1921, is still widespread in this region. In order to assess field heterogeneity at the regional level, nucleotide sequences corresponding to the C-terminal end of the p72 gene were determined for 77 ASF viruses of diverse temporal and species origin occurring in eight East African countries. The number of sites completely conserved across all East African sequences characterized in this study was 84.2% and 86.8% on nucleotide and amino acid level, respectively. Phylogenetic analysis of a homologous 404 bp region revealed the presence of thirteen East African genotypes, of which eight appear to be country specific. An East African, pig-associated, homogeneous virus lineage linked to outbreaks in Mozambique, Zambia and Malawi over a 23 year period was demonstrated. In addition, genotype I (ESACWA) viruses were identified in East African sylvatic hosts for the first time which is significant as this genotype was previously thought to be restricted to the West African region where it occurs only in domestic pigs. The presence of discrete epidemiological cycles in East Africa and recovery of multiple genotypes affirms the epidemiological complexity of ASF in this region.

Africa, Eastern↗
PubMed2005

Retrospective genetic analysis of SAT-1 type foot-and-mouth disease outbreaks in southern Africa.

In areas where foot-and-mouth disease (FMD) is endemic in wildlife hosts, such as the Kruger National Park (KNP) in South Africa, control measures are in place that ensure that potentially infected antelope and buffalo do not come into close contact with domestic animals. In South Africa several SAT-1 outbreaks occurred nearly simultaneously in cattle and impala between 1971-1981. Phylogenetic analysis based on partial 1D gene nucleotide sequencing indicated that several of these outbreaks were linked and it is probable that disease spread from the intermediary impala antelope host to cattle in close proximity. Evidence was found for the involvement of viruses from a single KNP genotype in precipitating outbreaks in impala over a 10-year period. In addition, several unrelated outbreaks affecting cattle and impala occurred within a single year. Characterisation of outbreak strains from Botswana similarly revealed that a single genotype affected different species over a 10-year period and that transboundary spread of SAT-1 virus occurred on at least one occasion. This retrospective analysis of outbreak strains has clearly demonstrated that FMD control policies that address the role of antelope as intermediaries in disease transmission are crucial as these wildlife species play an important role in disease dissemination.

Africa, Southern↗
PubMed2006

Genetic diversity of the Rep gene of beak and feather disease virus in South Africa.

A study on the genetic variation of Beak and feather disease virus (BFDV) isolates in South Africa was performed by amplifying and sequencing a region within the ORF1 of the genome. Six different BFDV isolates were found in 15 psittacine species from 6 regions within South Africa, representing three unique isolates and three isolates that clustered into a budgerigar lineage (BG) previously described.

Animals↗
PubMed2001

Genetic heterogeneity of SAT-1 type foot-and-mouth disease viruses in southern Africa.

Genetic relationships of 50 SAT-1 type foot-and-mouth disease viruses were determined by phylogenetic analysis of an homologous 417 nucleotide region encoding the C-terminal half of the VP1 gene and part of the 2A segment. Viruses obtained from persistently-infected African buffalo populations were selected in order to assess the regional genetic variation within the host species and compared with ten viruses recovered from recent and historical cases of clinical infection. Phylogenetic reconstructions identified three independently evolving buffalo virus lineages within southern Africa, that correspond with the following discrete geographic localities: (1) South Africa and southern Zimbabwe, (2) Namibia, Botswana and western Zimbabwe, and (3) Zambia, Malawi and northern Zimbabwe. This strict geographic grouping of viruses derived from buffalo was shown to be useful for determining the origin of recent SAT-1 epizootics in livestock. The percentage of conserved amino acid sites across the 50 SAT-1 viruses compared in this study was 50%. Most mutations were clustered within three discrete hypervariable regions, which coincide with the immunogenic G-H loop, H-1 loop and C-terminus region of the protein. Despite the high levels of variation within the primary sequence, secondary structural features appear to be conserved.

Africa South of the Sahara↗
PubMed2002

Outbreak of African tick-bite fever in six Italian tourists returning from South Africa.

In May 1999, a cluster of cases of African tick-bite fever was detected in six Italian tourists who had returned from South Africa. All of the patients had moderate fever and cutaneous eschars. Regional lymphangitis was observed in three of the patients and skin rash in two. By comparing the number of eschars with the number of detectable bite sites it was suggested that at least two-thirds of the biting vectors were capable of transmitting Rickettsia africae. The clinical course of disease was mild in all cases, and all but one of the patients recovered spontaneously before antibiotic treatment was initiated. The diagnosis of African tick-bite fever was confirmed serologically using both microimmunofluorescence and Western blot tests.

Animals↗
PubMed2006

A controlled study of an HIV/AIDS/STI/TB intervention with traditional healers in KwaZulu-Natal, South Africa.

Traditional healers play an important role in southern Africa culture and health care including the HIV epidemic. Here we report among the first controlled studies of an HIV/AIDS, sexually transmitted infections (STI) and tuberculosis (TB) intervention for traditional healers in South Africa. At baseline 233 traditional healers were assessed in four selected communities in the KwaZulu-Natal province and received either an experimental intervention or a no intervention control condition. The intervention group received training in HIV/AIDS, STI, and TB prevention over 3.5 days as well as a supervisory follow-up visit. At 7-9 months follow-up intervention effects were significant for HIV knowledge and HIV and STI management strategies including conducting risk behavior assessments and counseling, condom distribution, community HIV/AIDS and STI education, and record keeping. The study found a high level of preparedness among traditional healers to work with and refer patients to biomedical health practitioners, yet no higher levels of referral to biomedical practitioners were found after the training.

Acquired Immunodeficiency Syndrome↗
PubMed2004

Trichloroacetic acid as additional factor contributing to desertification in southern Africa.

There has been an accelerated expansion of deserts in the past five decades. Recent data reveal that the atmogenically formed organic compound, trichloroacetic acid (TCA) is a contributory factor in addition to anthropogenic and natural sources. The aim of this study was to use TCA as an indicator for the possible occurrence of C2-chloroacetic acids; to assess the burden on the vegetation by using pine needles as a bio-indicator system and to deliberate on the possible role of TCA in the dynamics of the vegetation in southern Africa. Field experiments conducted on pine trees and on C3 and C4 crop plants under controlled laboratory conditions, have revealed that plants could be influenced positively or negatively by TCA. To obtain an integrated assessment of the pollution emission over a time span of at least one year, two-year-old pine needles of different Pinus species were used as a bio-indicator for TCA pollution at different measuring sites. The data of our investigation clearly indicate that areas exist in South Africa where the vegetation is burdened by ecotoxicologically relevant TCA contents comparable to those in central Europe and southern Russia where TCA was shown to play a role in the destabilisation of the steppe vegetation.

Air Pollutants↗
PubMed2006

Influence of cooking and heating fuel use on 1-59 month old mortality in South Africa.

OBJECTIVES: To determine the association between the combustion of wood, animal dung, coal and paraffin (polluting fuels) for cooking and heating and 1-59 month old mortality in South Africa, whilst adjusting for a number of confounders. METHODS: Data from 3,556 children (142 deaths) living in 2,828 households were extracted from the 1998 South African Demographic and Health Survey (SADHS) database. The SADHS was the first national health survey conducted across the entire country and provided the opportunity to examine the prevalence and determinants of various morbidity and mortality outcomes in a representative national population. RESULTS: The results suggest that exposure to cooking and heating smoke from polluting fuels is significantly associated with 1-59 month mortality, after controlling for mother's age at birth, water source, asset index and household crowdedness (RR=1.95; 95% CI=1.04, 3.68). CONCLUSIONS: Although there is potential for residual confounding despite adjustment, the better documented evidence on outdoor air pollution and mortality suggest this association may be real. As nearly half of households in South Africa still rely on polluting fuels and women of childbearing age perform most cooking tasks, the attributable risk arising from this association, if confirmed, could be substantial. It is trusted that more detailed analytical intervention studies will scrutinise these results in order to develop integrated intervention programmes to reduce children's exposure to air pollution emanating from cooking and heating fuels.

Adolescent↗
PubMed2006

A USA-Africa collaborative strategy for identifying, characterizing, and developing maize germplasm with resistance to aflatoxin contamination.

Aflatoxin contamination of maize by Aspergillus flavus poses serious potential economic losses in the US and health hazards to humans, particularly in West Africa. The Southern Regional Research Center of the United States Department of Agriculture, Agricultural Research Service (USDA-ARS-SRRC) and the International Institute of Tropical Agriculture (IITA) initiated a collaborative breeding project to develop maize germplasm with resistance to aflatoxin accumulation. Resistant genotypes from the US and selected inbred lines from IITA were used to generate backcrosses with 75% US germplasm and F(1) crosses with 50% IITA and 50% US germplasm. A total of 65 S(4) lines were developed from the backcross populations and 144 S(4) lines were derived from the F(1) crosses. These lines were separated into groups and screened in SRRC laboratory using a kernel-screening assay. Significant differences in aflatoxin production were detected among the lines within each group. Several promising S(4) lines with aflatoxin values significantly lower than their respective US resistant recurrent parent or their elite tropical inbred parent were selected for resistance-confirmation tests. We found pairs of S(4) lines with 75-94% common genetic backgrounds differing significantly in aflatoxin accumulation. These pairs of lines are currently being used for proteome analysis to identify resistance-associated proteins and the corresponding genes underlying resistance to aflatoxin accumulation. Following confirmation tests in the laboratory, lines with consistently low aflatoxin levels will be inoculated with A. flavus in the field in Nigeria to identify lines resistant to strains specific to both US and West Africa. Maize inbred lines with desirable agronomic traits and low levels of aflatoxin in the field would be released as sources of genes for resistance to aflatoxin production.

Aflatoxins↗
PubMed1991

Chronology of early Archaean granite-greenstone evolution in the Barberton Mountain Land, South Africa, based on precise dating by single zircon evaporation.

We report precise 207Pb/206Pb single zircon evaporation ages for low-grade felsic metavolcanic rocks within the Onverwacht and Fig Tree Groups of the Barberton Greenstone Belt (BGB), South Africa, and from granitoid plutons bordering the belt. Dacitic tuffs of the Hooggenoeg Formation in the upper part of the Onverwacht Group yield ages between 3445 +/- 3 and 3416 +/- 5 Ma and contain older crustal components represented by a 3504 +/- 4 Ma old zircon xenocryst. Fig Tree dacitic tuffs and agglomerates have euhedral zircons between 3259 +/- 5 and 3225 +/- 3 Ma in age which we interpret to reflect the time of crystallization. A surprisingly complex xenocryst population in one sample documents ages from 3323 +/- 4 to 3522 +/- 4 Ma. We suspect that these xenocrysts were inherited, during the passage of the felsic melts to the surface, from various sources such as greenstones and granitoid rocks now exposed in the form of tonalite-trondhjemite plutons along the southern and western margins of the BGB, and units predating any of the exposed greenstone or intrusive rocks. Several of the granitoids along the southern margin of the belt have zircon populations with ages between 3490 and 3440 Ma. coeval with or slightly older than Onverwacht felsic volcanism, while the Kaap Valley pluton along the northwestern margin of the belt is coeval with Fig Tree dacitic volcanism. These results emphasize the comagmatic relationships between greenstone felsic volcanic units and the surrounding plutonic suites. Some of the volcanic plutonic units contain zircon xenocrysts older than any exposed rocks. These indicate the existence of still older units, possibly stratigraphically lower and older portions of the greenstone sequence itself, older granitoid intrusive rocks, or bodies of older, unrelated crustal material. Our data show that the Onverwacht and Fig Tree felsic units have distinctly different ages and therefore do not represent a single, tectonically repeated unit as proposed by others. Unlike the late Archaean Abitibi greenstone belt in Canada, which formed over about 30 Ma. exposed rocks in the BGB formed over a period of at least 220 Ma. The complex zircon populations encountered in this study imply that conventional multigrain zircon dating may not accurately identify the time of felsic volcanic activity in ancient greenstones. A surprising similarity in rock types, tectonic evolution, and ages of the BGB in the Kaapvaal craton of southern Africa and greenstones in the Pilbara Block of Western Australia suggests that these two terrains may have been part of a larger crustal unit in early Archaean times.

Crystallization↗
PubMed1987

The status of dengue fever virus in South Africa--serological studies and diagnosis of a case of dengue fever.

To assess the possibility of a dengue epidemic occurring in South Africa 3 groups of survey sera and 2 groups of patients' sera, from a dengue high risk area of South Africa, were tested for antibodies to several flaviviruses. 3.8% (75/1951) of the survey sera and 9.2% (26/282) of the patients' sera had haemagglutination inhibition antibodies to one or more of the flaviviruses tested. One of 1951 survey sera had a spectrum of complement fixation antibody consistent with a primary dengue infection, and 5 of 282 patients' sera also had complement fixation antibodies to flavivirus antigens. These 5 positive patients had recently travelled to India but in only one was there an antibody spectrum unequivocably consistent with a primary dengue infection. Dengue virus type 1 was successfully isolated from this patient's acute serum. The susceptibility of the population to dengue virus infection, the presence of the main vector of dengue virus and the occurrence of imported cases of dengue fever emphasize the need for continuous vigilance.

Antibodies, Viral↗
PubMedDate not supplied

Changes in the relative frequency of occurrence of infestations of two sympatric species of bedbug in northern Natal and KwaZulu, South Africa.

Between 1983 and 1988 the frequency of Cimex hemipterus infestations relative to C. lectularius increased near the Mozambique border and around main roads in the Nkundusi-Mfekayi area of South Africa (28 degrees 15'S; 30 degrees 23' E). In areas where both species were common, the observed number of doubly-infested huts equalled the expected. A hut infested by both bedbug species showed a significant change to a higher proportion of C. hemipterus in the adult population over 2 months. The general increase in C. hemipterus is thought to be due to the large influx of migrants into South Africa in recent years.

Animals↗