ENAapplication/xmlftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/064/SRR27481864/SRR27481864_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/068/SRR27481868/SRR27481868_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/072/SRR27481872/SRR27481872_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/076/SRR27481876/SRR27481876_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/075/SRR27481875/SRR27481875_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/074/SRR27481874/SRR27481874_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/071/SRR27481871/SRR27481871_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/069/SRR27481869/SRR27481869_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR317/080/SRR31797080/SRR31797080_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/071/SRR27481871/SRR27481871_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/065/SRR27481865/SRR27481865_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/070/SRR27481870/SRR27481870_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/067/SRR27481867/SRR27481867_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/064/SRR27481864/SRR27481864_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/076/SRR27481876/SRR27481876_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/077/SRR27481877/SRR27481877_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/074/SRR27481874/SRR27481874_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/073/SRR27481873/SRR27481873_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/070/SRR27481870/SRR27481870_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/066/SRR27481866/SRR27481866_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/078/SRR27481878/SRR27481878_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/077/SRR27481877/SRR27481877_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/069/SRR27481869/SRR27481869_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR317/080/SRR31797080/SRR31797080_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/065/SRR27481865/SRR27481865_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/072/SRR27481872/SRR27481872_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/068/SRR27481868/SRR27481868_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/063/SRR27481863/SRR27481863_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/075/SRR27481875/SRR27481875_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/078/SRR27481878/SRR27481878_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/067/SRR27481867/SRR27481867_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/073/SRR27481873/SRR27481873_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/066/SRR27481866/SRR27481866_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR274/063/SRR27481863/SRR27481863_1.fastq.gzprimaryOK200GenomicsUniversity of North Carolina at Chapel Hillhttps://www.ebi.ac.uk/ena/browser/view/PRJNA1063273HistoplasmaWhole genome sequencing has revolutionized our understanding of microbial diversity, including human pathogens. In the case of fungal pathogens, a limiting factor in understanding the extent of their genetic diversity has been the lack of systematic sampling. In this piece, we show the results of a collection in the Indian subcontinent of the pathogenic fungus Histoplasma, the causal agent of a systemic mycosis. We find that Indian samples of Histoplasma form a distinct clade which is highly differentiated from other Histoplasma species. We also show that the genome of this lineage shows unique signals of natural selection. This work exemplifies how the combination of a robust sampling along with population genetics, and phylogenetics can reveal the precise genetic changes that differentiate lineages of fungal pathogens.pathogen:prioritypathogenpathogen:fungusENAfungiSvc, Bru, Col4a-1, Emmonsiella capsulata, Histoplasma capsulatum, Cryptococcus capsulatus, Raw, Republic of India, sequence, primary structure of sequence macromolecule., Del(8)44H, Ajellomyces capsulatus, HistoplasmasHistoplasmas., Emmonsiella capsulata, Histoplasma capsulatum, Cryptococcus capsulatus, Ajellomyces capsulatusfalseHistoplasmaHistoplasma samples from India, Raw sequence reads2024-07-192024-01-15PRJNA10632735036