Histoplasma capsulatum Isolated from Tadarida brasiliensis Bats Captured in Mexico Form a Sister Group to North American Class 2 Clade
Abstract
:1. Introduction
2. Materials and Methods
2.1. New Histoplasma capsulatum Isolates Studied
2.2. Histoplasma capsulatum Sequences
2.3. DNA Extraction, PCR, and Sequencing of Histoplasma capsulatum Isolates
2.4. Histoplasma capsulatum Sequence Alignments and BLASTn Analyses
2.5. Congruence Analysis
2.6. Phylogenetic Reconstruction
2.7. Coalescence Analysis
2.8. Concatenated Sequence-Types (CSTs) Network
2.9. Nucleotide Diversity (π)
3. Results
3.1. Histoplasma capsulatum BLASTn Analysis
3.2. Congruence Analysis
3.3. Phylogenetic Reconstruction
3.4. Coalescence Analysis
3.5. Concatenated Sequence-Types (CSTs) Network
3.6. Nucleotide Diversity (π)
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Isolate Related | Phylogenetic- | Origin | GenBank (Accession Numbers) | ||||
---|---|---|---|---|---|---|---|
Acronym | Source | Species/Lineage a | arf | H-anti | ole1 | tub1 | |
1558 | Human | LAm B (*) | AR | KT601344 | KT601418 | KT601381 | KT601463 |
1739 | Human | LAm B (*) | AR | KT601345 | KT601419 | KT601382 | KT601464 |
92590 | Human | LAm B (LAm B1) | AR | KT601346 | KT601420 | KT601383 | KT601465 |
951814 | Human | LAm B (LAm B1) | AR | KT601347 | KT601421 | KT601384 | KT601466 |
993444 | Human | LAm B (LAm B1) | AR | KT601348 | KT601423 | KT601385 | KT601467 |
993445 | Human | LAm B (LAm B1) | AR | KT601349 | KT601424 | KT601386 | KT601468 |
993446 | Human | LAm B (LAm B1) | AR | KT601350 | KT601425 | KT601387 | KT601469 |
993267 | Human | LAm B (LAm B1) | AR | KT601351 | KT601422 | KT601388 | KT601470 |
AP | Human | LAm A (LAm A1) | CO | KT601352 | KT601427 | KT601389 | KT601471 |
DS | Human | LAm A (*) | CO | KT601353 | KT601428 | KT601390 | KT601472 |
GeM | Human | LAm A (LAm A1) | CO | KT601354 | KT601445 | KT601391 | KT601473 |
GLi | Human | LAm A (LAm A2) | CO | KT601355 | KT601446 | KT601392 | KT601474 |
Hz | Human | LAm B (LAm B1) | CO | KT601356 | KT601449 | KT601393 | KT601475 |
JG | Human | LAm B (LAm B1) | CO | KT601357 | KT601450 | KT601394 | KT601476 |
LA | Human | LAm A (LAm A2) | CO | KT601358 | KT601451 | KT601395 | KT601477 |
LF | Human | LAm A (*) | CO | KT601359 | KT601452 | KT601396 | KT601478 |
MZ2 | Human | LAm A (LAm A2) | CO | KT601360 | KT601426 | KT601397 | KT601479 |
RG | Human | LAm A (LAm A1) | CO | KT601361 | KT601453 | KT601398 | KT601480 |
WCh | Human | LAm A (LAm A1) | CO | KT601362 | KT601454 | KT601399 | KT601481 |
H.1.02.W | Human | LAm A (LAm A2) | GT | KT601363 | KT601447 | KT601400 | KT601482 |
H.1.12.96 | Human | LAm A (LAm A2) | GT | KT601364 | KT601448 | KT601401 | KT601483 |
EH-323 | Human | LAm A (*) | MX | KT601365 | KT601429 | KT601402 | KT601484 |
EH-324 | Human | LAm A (*) | MX | KT601366 | KT601430 | KT601403 | KT601485 |
EH-326 | Human | LAm A (*) | MX | KT601367 | KT601431 | KT601404 | KT601486 |
EH-327 | Human | LAm A (*) | MX | KT601368 | KT601432 | KT601405 | KT601487 |
EH-328 | Human | LAm A (LAm A1) | MX | KT601369 | KT601433 | KT601406 | KT601488 |
EH-355 | Human | LAm A (*) | MX | KT601370 | KT601434 | KT601407 | KT601489 |
EH-356 | Human | LAm A (*) | MX | KT601371 | KT601435 | KT601408 | KT601490 |
EH-357 | Human | LAm A (*) | MX | KT601372 | KT601436 | KT601409 | KT601491 |
EH-383I b | L. nivalis | LAm A (LAm A1) | MX | AF495619 | AF495620 | AF495621 | F495622 |
EH-383P b | L. nivalis | LAm A (LAm A1) | MX | AF495623 | AF495624 | AF495625 | AF495626 |
EH-384I b | T. brasiliensis | NAm 3 (BAC1) | MX | AF495627 | AF495628 | AF495629 | AF495630 |
EH-384P b | T. brasiliensis | NAm 3 (BAC1) | MX | AF495631 | AF495632 | AF495633 | AF495634 |
EH-408H b | L. nivalis | LAm A (LAm A1) | MX | AF495644 | AF495643 | AF495645 | AF495646 |
EH-449B | L. nivalis | LAm A (LAm A1 | MX | KT601373 | KT601437 | KT601410 | KT601455 |
EH-655P | T. brasiliensis | NAm 3 (BAC1) | MX | KT601374 | KT601438 | KT601411 | KT601458 |
EH-658H | T. brasiliensis | NAm 3 (BAC1) | MX | KT601375 | KT601439 | KT601412 | KT601459 |
EH-670B | T. brasiliensis | NAm 3 (BAC1) | MX | KT601376 | KT601440 | KT601414 | KT601460 |
EH-670H | T. brasiliensis | NAm 3 (BAC1) | MX | KT601377 | KT601441 | KT601415 | KT601461 |
EH-672B | T. brasiliensis | NAm 3 (*) | MX | KT601378 | KT601442 | KT601413 | KT601456 |
EH-672H | T. brasiliensis | NAm 3 (*) | MX | KT601379 | KT601443 | KT601416 | KT601457 |
EH-696P | T. brasiliensis | H153-lineage (*) | MX | KT601380 | KT601444 | KT601417 | KT601462 |
Gene Fragments | Nucleotide Sites | ||||
---|---|---|---|---|---|
Size (nt) | a Start/End (nt) | Variable | Parsimonious | ||
Informative | Uninformative | ||||
arf | 457 | 415/871 | 70 | 44 | 26 |
H-anti | 397 | 394/789 | 91 | 59 | 32 |
ole1 | 414 | 37/450 | 69 | 49 | 20 |
tub1 | 270 | 590/862 | 91 | 74 | 17 |
Total | 1538 | 321 | 226 | 95 |
Sum of Tree Lengths | |||
---|---|---|---|
Partition | Original Partition | Range of Replicates | p Value |
Four genes | 1243 | 1243–1242 | 0.997 |
arf vs. H-anti | 161 | 161–0 | 1 |
arf vs. ole1 | 156 | 156–157 | 0.941 |
arf vs. tub1 | 193 | 193–194 | 0.997 |
H-anti vs. ole1 | 168 | 168–169 | 0.748 |
H-anti vs. tub1 | 217 | 217–0 | 1 |
ole1 vs. tub1 | 202 | 202–0 | 1 |
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Vite-Garín, T.; Estrada-Bárcenas, D.A.; Gernandt, D.S.; Reyes-Montes, M.d.R.; Sahaza, J.H.; Canteros, C.E.; Ramírez, J.A.; Rodríguez-Arellanes, G.; Serra-Damasceno, L.; Zancopé-Oliveira, R.M.; et al. Histoplasma capsulatum Isolated from Tadarida brasiliensis Bats Captured in Mexico Form a Sister Group to North American Class 2 Clade. J. Fungi 2021, 7, 529. https://doi.org/10.3390/jof7070529
Vite-Garín T, Estrada-Bárcenas DA, Gernandt DS, Reyes-Montes MdR, Sahaza JH, Canteros CE, Ramírez JA, Rodríguez-Arellanes G, Serra-Damasceno L, Zancopé-Oliveira RM, et al. Histoplasma capsulatum Isolated from Tadarida brasiliensis Bats Captured in Mexico Form a Sister Group to North American Class 2 Clade. Journal of Fungi. 2021; 7(7):529. https://doi.org/10.3390/jof7070529
Chicago/Turabian StyleVite-Garín, Tania, Daniel A. Estrada-Bárcenas, David S. Gernandt, María del Rocío Reyes-Montes, Jorge H. Sahaza, Cristina E. Canteros, José A. Ramírez, Gabriela Rodríguez-Arellanes, Lisandra Serra-Damasceno, Rosely M. Zancopé-Oliveira, and et al. 2021. "Histoplasma capsulatum Isolated from Tadarida brasiliensis Bats Captured in Mexico Form a Sister Group to North American Class 2 Clade" Journal of Fungi 7, no. 7: 529. https://doi.org/10.3390/jof7070529