Optimum chance phylogenetic relationships of control area…
Optimum chance phylogenetic relationships of control region haplotypes produced from market purchased eyeball examples and sequences acquired from known people.
Phylogenetic relationships had been identical in Bayesian inference, maximum likelihood and maximum parsimony estimates (?lnL = 1399.28612; parsimony size = 141). Help values mentioned above nodes are Bayesian https://www.camsloveaholics.com/female/nude probabilities centered on 5,000,000 resamples, maximum likelihood bootstrap help values centered on 1,000 bootstrap replicates, and maximum parsimony bootstrap help values predicated on 2,000 bootstrap replicates. Help values are shown just for clades of Sotalia guianensis and Sotalia fluviatilis haplotypes, and also for the monophyly of Sotalia. Branch lengths are proportional to likelihood that is maximum divergence; scale shows portion of series divergence. Haplotypes 1–14, highlighted in bold, had been present in our study and correspond to GenBank accession #EU022531–EU022544.
To further confirm the relationships associated with the unknown sequences, we performed a nonphylogenetic analysis that is cladistic. We constructed a matrix of autapomorphies for Sotalia fluviatilis, Sotalia guianensis, Inia g. Geoffrensis, Inia g. Humboltiana, and Inia g. Boliviensis predicated on available series information in Genbank and our guide people, and performed a populace aggregation analysis ( Davis and Nixon 1992 ).
All eyeball?derived sequences decided by BLAST to be of cetacean origin provided species?specific character that is autapomorphic indicative of molecular positional homologies with Sotalia guianensis with no other types, unambiguously assigning all eyeballs of cetacean origin to Sotalia guianensis. The control area and Cytochrome b data sets have two and six diagnostic web sites, correspondingly, that assign all cetacean eyeball examples to Sotalia guianensis and unambiguously differentiate it from Sotalia fluviatilis and Inia spp. ( dining dining dining Table 1; online Appendix S1, S2).
| Control area | BEL | MAO | PVH | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Variable position | 39 | 136 | 139 | 160 | 175 | 231 | 256 | 269 | 270 | 362 | 381 | 387 | 404 | 463 | 504 | 559 | Haplotype occurence | ||
| Inia spp. | A | T | A | G | C | G | G/A | A | A | T | C | C/T | C/T | C | C/T | A | ? | ? | ? |
| Sotalia fluviatilis | T | T | A | G | C/T | G | C/T | T | C | C/T | C | T | T | C | T | A | ? | ? | ? |
| Sotalia guianensis | C | G/T | A/C | A | C/T | G/A | C/T | C/T | C/T | C/T | C/G | C/T | C/T | C/T | C/T | C/A | 22 | 11 | 1 |
| CR_Hap01 | C | T | A | A | T | A | C | C | C | C | C | T | C | C | T | the | 1 | ? | ? |
| CR_Hap02 | C | T | A | A | T | A | C | T | C | C | C | C | T | C | T | A | 2 | ? | ? |
| CR_Hap03 | C | T | A | A | T | A | C | C | C | C | C | C | T | C | T | A | 6 | 2 | ? |
| CR_Hap04 | C | T | A | A | T | A | C | T | C | C | C | T | C | C | T | A | 3 | 5 | 1 |
| CR_Hap05 | C | T | A | A | T | A | C | T | C | T | C | T | C | C | T | A | 1 | 2 | ? |
| CR_Hap06 | C | T | the | A | C | the | T | T | T | C | C | T | T | C | T | A | 1 | ? | ? |
| CR_Hap07 | C | T | A | A | T | A | C | T | C | C | C | C | C | C | T | A | 3 | ? | ? |
| CR_Hap08 | C | G | C | A | T | G | C | T | C | C | C | T | C | C | T | the | 1 | ? | ? |
| CR_Hap09 | C | T | A | A | T | G | C | T | C | C | C | T | C | C | T | the | 1 | ? | ? |
| CR_Hap10 | C | T | A | A | T | A | C | C | C | C | C | T | T | C | T | the | 1 | ? | ? |
| CR_Hap11 | C | T | A | A | T | A | C | C | C | C | C | C | T | T | T | A | ? | 1 | ? |
| CR_Hap12 | C | T | A | A | T | A | C | C | C | C | C | C | T | C | T | C | ? | 1 | ? |
| CR_Hap13 | C | T | the | A | C | the | C | T | T | C | C | T | T | C | C | the | 1 | ? | ? |
| CR_Hap14 | C | T | A | A | T | A | C | C | C | C | G | C | T | C | T | the | 1 | ? | ? |
| Cytochrome b | |||||||||||||||||||
| Variable position | 49 | 78 | 124 | 297 | 367 | 396 | 462 | 501 | 528 | 531 | 561 | ||||||||
| Inia spp. | G | T | A | C | G | C | T | T | A | C | T | ? | ? | ? | |||||
| Sotalia fluviatilis | G | C | A | G | G | C | T | the | A | C | T | ? | ? | ? | |||||
| Sotalia guianensis | G/A | C/T | G/A | A | G/A | C/T | C | G | C | T | C | 16 | 7 | 1 | |||||
| CB_Hap01 | G | C | A | A | G | C | C | G | C | T | C | 8 | 4 | 1 | |||||
| CB_Hap02 | A | C | A | the | G | C | C | G | C | T | C | 1 | ? | ? | |||||
| CB_Hap03 | G | T | A | A | G | C | C | G | C | T | C | 1 | ? | ? | |||||
| CB_Hap04 | G | C | G | A | G | T | C | G | C | T | C | 3 | 1 | ? | |||||
| CB_Hap05 | G | C | G | A | A | T | C | G | C | T | C | 3 | 2 | ? | |||||
- Web web web Sites highlighted in bold unambiguously assign the eyeball that is unknown to Sotalia guianensis. Those maybe not highlighted differentiate haplotypes that are observed. Control area haplotypes 1–14 match GenBank accession numbers EU022531?EU022544, while cytochrome b haplotypes 1–5 match GenBank accession numbers EU022545?EU022549. BEL = Belem, MAO = Manaus, PVH = Porto Velho.
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