Abstract:
:The Paracoccidioides genus includes two species of thermally dimorphic fungi that cause paracoccidioidomycosis, a neglected health-threatening human systemic mycosis endemic to Latin America. To examine the genome evolution and the diversity of Paracoccidioides spp., we conducted whole-genome sequencing of 31 isolates representing the phylogenetic, geographic, and ecological breadth of the genus. These samples included clinical, environmental and laboratory reference strains of the S1, PS2, PS3, and PS4 lineages of P. brasiliensis and also isolates of Paracoccidioides lutzii species. We completed the first annotated genome assemblies for the PS3 and PS4 lineages and found that gene order was highly conserved across the major lineages, with only a few chromosomal rearrangements. Comparing whole-genome assemblies of the major lineages with single-nucleotide polymorphisms (SNPs) predicted from the remaining 26 isolates, we identified a deep split of the S1 lineage into two clades we named S1a and S1b. We found evidence for greater genetic exchange between the S1b lineage and all other lineages; this may reflect the broad geographic range of S1b, which is often sympatric with the remaining, largely geographically isolated lineages. In addition, we found evidence of positive selection for the GP43 and PGA1 antigen genes and genes coding for other secreted proteins and proteases and lineage-specific loss-of-function mutations in cell wall and protease genes; these together may contribute to virulence and host immune response variation among natural isolates of Paracoccidioides spp. These insights into the recent evolutionary events highlight important differences between the lineages that could impact the distribution, pathogenicity, and ecology of Paracoccidioides. IMPORTANCE Characterization of genetic differences between lineages of the dimorphic human-pathogenic fungus Paracoccidioides can identify changes linked to important phenotypes and guide the development of new diagnostics and treatments. In this article, we compared genomes of 31 diverse isolates representing the major lineages of Paracoccidioides spp. and completed the first annotated genome sequences for the PS3 and PS4 lineages. We analyzed the population structure and characterized the genetic diversity among the lineages of Paracoccidioides, including a deep split of S1 into two lineages (S1a and S1b), and differentiated S1b, associated with most clinical cases, as the more highly recombining and diverse lineage. In addition, we found patterns of positive selection in surface proteins and secreted enzymes among the lineages, suggesting diversifying mechanisms of pathogenicity and adaptation across this species complex. These genetic differences suggest associations with the geographic range, pathogenicity, and ecological niches of Paracoccidioides lineages.
journal_name
mSpherejournal_title
mSphereauthors
Muñoz JF,Farrer RA,Desjardins CA,Gallo JE,Sykes S,Sakthikumar S,Misas E,Whiston EA,Bagagli E,Soares CM,Teixeira MM,Taylor JW,Clay OK,McEwen JG,Cuomo CAdoi
10.1128/mSphere.00213-16subject
Has Abstractpub_date
2016-09-28 00:00:00issue
5issn
2379-5042pii
mSphere00213-16journal_volume
1pub_type
杂志文章相关文献
mSphere文献大全abstract::Export of parasite proteins into the host erythrocyte is essential for survival of Plasmodium falciparum during its asexual life cycle. While several studies described key factors within the parasite that are involved in protein export, the mechanisms employed to traffic exported proteins within the host cell are curr...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00363-17
更新日期:2017-09-27 00:00:00
abstract::CRISPR (clustered regularly interspaced short palindromic repeat)-Cas9 is a novel genome-editing system that has been successfully established in Aspergillus fumigatus. However, the current state of the technology relies heavily on DNA-based expression cassettes for delivering Cas9 and the guide RNA (gRNA) to the cell...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00446-17
更新日期:2017-11-22 00:00:00
abstract::Escherichia coli populations undergo repeated replacement of parental genotypes with fitter variants deep in stationary phase. We isolated one such variant, which emerged after 3 weeks of maintaining an E. coli K-12 population in stationary phase. This variant displayed a small colony phenotype and slow growth and was...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00092-20
更新日期:2020-04-15 00:00:00
abstract::This study was carried out to evaluate hypotheses generated by fundamental cause theory regarding the socioeconomic status (SES) gradient in colonization with Staphylococcus aureus among Hispanic and non-Hispanic adults living in a border community. Participants (n = 613) recruited in naturally occurring small groups ...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00623-20
更新日期:2020-09-30 00:00:00
abstract::Mary Lopez-Perez works on immunology and pathogenesis of malaria. In this mSphere of Influence article, she reflects on how the paper "Functional antibodies against VAR2CSA in nonpregnant populations from Colombia exposed to Plasmodium falciparum and Plasmodium vivax" by S. Gnidehou, J. Doritchamou, E. M. Arango, A. C...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00224-20
更新日期:2020-04-08 00:00:00
abstract::Cryptococcus neoformans and related species are encapsulated basidiomycetous fungi that cause meningoencephalitis in individuals with immune deficiency. This pathogen has a tractable genetic system; however, gene disruption via electroporation remains difficult, while biolistic transformation is often limited by lack ...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphereDirect.00208-18
更新日期:2018-06-13 00:00:00
abstract::Many coronavirus disease 2019 (COVID-19) patients demonstrate lethal respiratory complications caused by cytokine release syndrome (CRS). Multiple cytokines have been implicated in CRS, but levels of tumor necrosis factor superfamily 14 (TNFSF14) (LIGHT) have not been previously measured in this setting. In this study...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00699-20
更新日期:2020-08-12 00:00:00
abstract::The genomes of Leishmania and trypanosomes encode six paralogs of the eIF4E cap-binding protein, known in other eukaryotes to anchor the translation initiation complex. In line with the heteroxenous nature of these parasites, the different LeishIF4E paralogs vary in their biophysical features and their biological beha...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00450-19
更新日期:2019-09-04 00:00:00
abstract::Female Hawaiian bobtail squid, Euprymna scolopes, harbor a symbiotic bacterial community in a reproductive organ, the accessory nidamental gland (ANG). This community is known to be stable over several generations of wild-caught bobtail squid but has, to date, been examined for only one population in Maunalua Bay, Oah...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00531-17
更新日期:2018-03-28 00:00:00
abstract::Diana V. Pastrana works in the field of DNA tumor virus biology. In this mSphere of Influence article, she reflects on how the two papers "Donor origin of BKV replication after kidney transplantation" (C. Schmitt, L. Raggub, S. Linnenweber-Held, O. Adams, et al., J Clin Virol 59:120-125, 2014, https://doi.org/10.1016/...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00964-19
更新日期:2020-01-15 00:00:00
abstract::Immunity to Toxoplasma gondii at early stages of infection in C57BL/6 mice depends on gamma interferon (IFN-γ) production by NK cells, while at later stages it is primarily mediated by CD8 T cells. We decided to explore the requirement for CD4 T cells during T. gondii infection in Batf3-/- mice, which lack CD8α+ dendr...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00634-20
更新日期:2020-07-15 00:00:00
abstract::We are exposed daily to many glycans from bacteria and food plants. Bacterial glycans are generally antigenic and elicit antibody responses. It is unclear if food glycans' sharing of antigens with bacterial glycans influences our immune responses to bacteria. We studied 14 different plant foods for cross-reactivity wi...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00074-20
更新日期:2020-04-08 00:00:00
abstract::Buruli ulcer is a neglected tropical disease of skin and subcutaneous tissue caused by infection with the pathogen Mycobacterium ulcerans Many critical issues for disease control, such as understanding the mode of transmission and identifying source reservoirs of M. ulcerans, are still largely unknown. Here, we used g...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00472-18
更新日期:2019-02-06 00:00:00
abstract::Vibrio cholerae is a noninvasive pathogen that colonizes the small intestine and produces cholera toxin, causing severe secretory diarrhea. Cholera results in long lasting immunity, and recent studies have improved our understanding of the antigenic repertoire of V. cholerae Interactions between the host, V. cholerae,...
journal_title:mSphere
pub_type: 杂志文章,评审
doi:10.1128/mSphere.00597-19
更新日期:2019-11-27 00:00:00
abstract::Amino acids participate in several critical processes in the biology of trypanosomatids, such as osmoregulation, cell differentiation, and host cell invasion. Some of them provide reducing power for mitochondrial ATP synthesis. It was previously shown that alanine, which is formed mainly by the amination of pyruvate, ...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphereDirect.00338-18
更新日期:2018-07-18 00:00:00
abstract::Replication forks must respond to changes in nutrient conditions, especially in bacterial cells. By investigating the single-molecule dynamics of replicative helicase DnaC, DNA primase DnaG, and lagging-strand polymerase DnaE in the model bacterium Bacillus subtilis, we show that proteins react differently to stress c...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00948-20
更新日期:2021-01-27 00:00:00
abstract::J. Christian Pérez studies the interplay between Candida albicans and the mammalian host. In this mSphere of Influence article, he reflects on how "Systematic screens of a Candida albicans homozygous deletion library decouple morphogenetic switching and pathogenicity" (S. M. Noble, S. French, L. A. Kohn, V. Chen, et a...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00258-19
更新日期:2019-06-19 00:00:00
abstract::Clostridium difficile, also known as Clostridioides difficile, is a Gram-positive, spore-forming bacterium that is a leading cause of antibiotic-associated diarrhea. C. difficile infections begin when its metabolically dormant spores germinate to form toxin-producing vegetative cells. Successful spore germination depe...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00205-18
更新日期:2018-06-27 00:00:00
abstract::Botulinum neurotoxins (BoNTs), produced by neurotoxigenic clostridial species, are the cause of the severe disease botulism in humans and animals. Early research on BoNTs has led to their classification into seven serotypes (serotypes A to G) based upon the selective neutralization of their toxicity in mice by homolog...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00100-15
更新日期:2016-02-24 00:00:00
abstract::Chikungunya virus (CHIKV) and Zika virus (ZIKV) emerged in the Americas in 2013. Limited antigenic variability of CHIKV and ZIKV may restrict urban transmission cycles due to population protective immunity. In Africa, sylvatic transmission cycles involving nonhuman primates (NHP) are known for CHIKV and ZIKV, causing ...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00523-17
更新日期:2018-01-31 00:00:00
abstract::Human adenoviruses (HAdV), species D in particular (HAdV-D), are frequently associated with epidemic keratoconjunctivitis (EKC). Although the infection originates at the ocular surface epithelium, the mechanisms by which HAdV-Ds bypass the membrane-associated mucin (MAM)-rich glycocalyx of the ocular surface epitheliu...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00112-15
更新日期:2016-02-10 00:00:00
abstract::Elizabethkingia anophelis is an emerging global multidrug-resistant opportunistic pathogen. We assessed the diversity among 13 complete genomes and 23 draft genomes of E. anophelis strains derived from various environmental settings and human infections from different geographic regions around the world from 1950s to ...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00040-19
更新日期:2019-04-03 00:00:00
abstract::The newly emerged Candida species Candida auris is associated with an exponential rise in life-threatening invasive disease in health care facilities worldwide. Unlike other species, C. auris exhibits a high level of transmissibility, multidrug resistance, and persistence in the environment, yet little is known about ...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00760-20
更新日期:2020-08-05 00:00:00
abstract::Sepsis caused by Gram-negative bacteria is the consequence of an unrestrained infection that continuously releases lipopolysaccharide (LPS) into the bloodstream, which triggers an uncontrolled systemic inflammatory response leading to multiorgan failure and death. After scrutinizing the immune modulation exerted by a ...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00548-18
更新日期:2018-12-19 00:00:00
abstract::Information on severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spread in Africa is limited by insufficient diagnostic capacity. Here, we assessed the coronavirus disease (COVID-19)-related diagnostic workload during the onset of the pandemic in the central laboratory of Benin, Western Africa; characterize...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00979-20
更新日期:2021-01-13 00:00:00
abstract::Staphylococcus aureus is a facultative intracellular pathogen that invades and replicates within many types of phagocytic and nonphagocytic cells. During intracellular infection, S. aureus is capable of subverting xenophagy and escaping to the cytosol of the host cell. Furthermore, drug-induced autophagy facilitates t...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00374-18
更新日期:2018-08-08 00:00:00
abstract::Outbreaks of infection occur more often than they are reported in most developing countries, largely due to poor diagnostic services. A Klebsiella species bacteremia outbreak in a newborn unit with high mortality was recently encountered at a location being surveilled for childhood bacteremia. These surveillance effor...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00685-18
更新日期:2019-03-13 00:00:00
abstract::Campylobacter jejuni is a leading cause of bacterial diarrhea worldwide and is associated with high rates of mortality and growth stunting in children inhabiting low- to middle-resource countries. To better understand the impact of breastfeeding on Campylobacter infection in infants in sub-Saharan Africa and South Asi...
journal_title:mSphere
pub_type: 杂志文章,多中心研究
doi:10.1128/mSphere.00735-19
更新日期:2020-01-15 00:00:00
abstract::Commensal and generally harmless in healthy individuals, Enterococcus faecalis causes opportunistic infections in immunocompromised patients. Plasmid-cured E. faecalis strain VE14089, derived from sequenced reference strain V583, is widely used for functional studies due to its improved genetic amenability. Although s...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00310-19
更新日期:2019-07-10 00:00:00
abstract::Experimental evolution is a method in which populations of organisms, often microbes, are founded by one or more ancestors of known genotype and then propagated under controlled conditions to study the evolutionary process. These evolving populations are influenced by all population genetic forces, including selection...
journal_title:mSphere
pub_type: 杂志文章
doi:10.1128/mSphere.00121-18
更新日期:2018-05-09 00:00:00