On Steiner trees and minimum spanning trees in hypergraphs

The origin of the Tibetan Mastiff and species identification of Canis based on mitochondrial cytochrome c oxidase subunit I (COI) gene and COI barcoding

“…Phylogenetic trees were constructed by Neighbor-Joining (NJ) methods of the MEGA4.1 software. The minimum-spanning network was received by Network4.5 software (Polzin and Daneschmand, 2003).…”

Population structure and diversity of the pathogenic fungus Aspergillus fumigatus isolated from different sources and geographic origins

“…The distortion of the inferred tree was estimated by means of the cophenetic correlation coefficient (CCCr) using Mantel's test (Manly 1997). In addition, a haplotype network was built to evaluate the genealogical relationships among AFLP haplotypes by the Median-Joining method (Bandelt et al 1999) implemented in NETWORK 4.2.0.1 (htt://www.fluxus-engineering.com, Polzin & Daneschmand 2003). The parameters used were epsilon = 0, 1/1 transitions-transvertions weight, 10 characters weight, and connexion criteria.…”

Molecular detection, identification and phylogenetic inference of Leishmania spp. in some desert lizards from Northwest China by using internal transcribed spacer 1 (ITS1) sequences

“…sequences. The MJ network method followed by MP option to clean up the network (Polzin and Daneschmand, 2003) was implemented with the program NET-WORK v.4.6.1.3 (available at http://www.fluxus-engineering.com). In addtion, to further assess the possibility of shared ancestry for L. tropica, we did haplotype network analysis with other sequence types from other regions or from clinical (human) samples, 43 representative sequences of L. tropica were retrived from GenBank for comparison (see Appendix A: Table S3 in Supplementary material).…”