Computational protocol: Origin of B chromosomes in Characidiumalipioi (Characiformes, Crenuchidae) and its relationship with supernumerary chromosomes in other Characidium species

Similar protocols

Protocol publication

[…] Amplification and partial sequencing of cytochrome oxidase c subunit 1 (COI) and cytochrome b (Cyt B) was performed to identify the specimens. The primers used were as follows: Cyt BL 14841 (5’-CCA TCC CAA ATC ACT GCA TGA TGA AA-3 ‘) and Cyt BH 15915b (5’-AAC CTC TCT CGA GCT GAT TACAAG AC -3’) () for Cyt B and COI L6252-Asn (5’-AAG GCG GGG AAA GCC GCC GCA G -3 ‘) and H7271-COXI (5’-TCC TAT GCC GAA GTA TGG TTC TTT T 3’) for COI (). The sequences were analyzed using Geneious Pro v8.05 software, and the alignment was performed with the algorithm MUSCLE (). The average distances between the sequences were calculated using the “pairwise deletion” option in MEGA 4.0 software (). […]

Pipeline specifications

Software tools Geneious, MUSCLE, MEGA
Application Nucleotide sequence alignment