The DOI matches its Crossref record; 14 of the 14 references it cites were found in a registry or an index.
Median-joining networks for inferring intraspecific phylogenies
Open accessAbstract
Reconstructing phylogenies from intraspecific data (such as human mitochondrial DNA variation) is often a challenging task because of large sample sizes and small genetic distances between individuals. The resulting multitude of plausible trees is best expressed by a network which displays alternative potential evolutionary paths in the form of cycles. We present a method ("median joining" [MJ]) for constructing networks from recombination-free population data that combines features of Kruskal's algorithm for finding minimum spanning trees by favoring short connections, and Farris's maximum-parsimony (MP) heuristic algorithm, which sequentially adds new vertices called "median vectors", except that our MJ method does not resolve ties. The MJ method is hence closely related to the earlier approach of Foulds, Hendy, and Penny for estimating MP trees but can be adjusted to the level of homoplasy by setting a parameter epsilon. Unlike our earlier reduced median (RM) network method, MJ is applicable to multistate characters (e.g., amino acid sequences). An additional feature is the speed of the implemented algorithm: a sample of 800 worldwide mtDNA hypervariable segment I sequences requires less than 3 h on a Pentium 120 PC. The MJ method is demonstrated on a Tibetan mitochondrial DNA RFLP data set.
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“Haplogroup H1 contains the majority of the Southwest samples, and its haplotypes are closely related (although not identical) to those occurring in present-day Eastern (M. g. silvestris), Rio Grande (M. g. intermedia), and Florida (M. g. osceola) wild turkey populations that currently occur outside the Southwest (Fig. 4 and Fig. S1) (15, 16).”
From Ancient mitochondrial DNA analysis reveals complexity of indigenous North American turkey domestication (2010) · cites this paper as [16]
In the citing paper
“However, even “relic” populations of wild turkeys, with no history of extirpation or human-mediated reintroductions, show limited phylogeographic subspecies patterning (15, 16), which may also reflect a postglacial colonization into a relatively continuous habitat, especially for the Eastern and Rio Grande subspecies (15).”
From Ancient mitochondrial DNA analysis reveals complexity of indigenous North American turkey domestication (2010) · cites this paper as [16]
Citations
Cites
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Methods for Computing Wagner Trees
Farris, J. S. (1970) · Systematic Biology · doi:10.1093/sysbio/19.1.83 · Cited by 1,243
Mitochondrial portraits of human populations using median networks.
Bandelt, H. J., Forster, P., Sykes, B. C., & Richards, M. B. (1995) · Genetics · doi:10.1093/genetics/141.2.743 · Cited by 1,071
Self-citationMethods for Computing Wagner Trees
Farris, J. S. (1970) · Systematic Zoology · doi:10.2307/2412028 · Cited by 937
Classification of European mtDNAs From an Analysis of Three European Populations
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Excoffier, L., & Smouse, P. E. (1994) · Genetics · doi:10.1093/genetics/136.1.343 · Cited by 460
mtDNA variation of aboriginal Siberians reveals distinct genetic affinities with Native Americans.
Torroni, A., Sukernik, R. I., Schurr, T. G., Starikorskaya, Y. B., Cabell, M. F., Crawford, M. H., Comuzzie, A. G., & Wallace, D. C. (1993) · PubMed · Cited by 389
Chen, Y. S., Torroni, A., Excoffier, L., Santachiara‐Benerecetti, A. S., & Wallace, D. C. (1995) · PubMed Central · Cited by 324
Nonneutral Mitochondrial DNA Variation in Humans and Chimpanzees
Nachman, M. W., Brown, W. M., Stoneking, M., & Aquadro, C. F. (1996) · Genetics · doi:10.1093/genetics/142.3.953 · Cited by 211
Pardi, F. (2024) · doi:10.1002/9781394284252.ch6 · Cited by 121
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Hewitt, G. M. (2000) · Nature · doi:10.1038/35016000 · Cited by 7,177
popart : full‐feature software for haplotype network construction
Leigh, J., & Bryant, D. (2015) · Methods in Ecology and Evolution · doi:10.1111/2041-210x.12410 · Cited by 6,772
Neighbor-Net: An Agglomerative Method for the Construction of Phylogenetic Networks
Bryant, D. (2003) · Molecular Biology and Evolution · doi:10.1093/molbev/msh018 · Cited by 2,198
Convergent adaptation of human lactase persistence in Africa and Europe
Tishkoff, S. A., Reed, F. A., Ranciaro, A., Voight, B. F., Babbitt, C. C., Silverman, J. S., Powell, K., Mortensen, H. M., Hirbo, J. B., Osman, M., et al. (2007) · Nature Genetics · doi:10.1038/ng1946 · Cited by 1,615
Intraspecific gene genealogies: trees grafting into networks
Posada, D., & Crandall, K. A. (2001) · Trends in Ecology & Evolution · doi:10.1016/s0169-5347(00)02026-7 · Cited by 1,507
Metadata
- Authors
- Bandelt, H. J., Forster, P., & Rohl, A.
- Affiliations
- Universität Hamburg (DE)
- Venue
- Molecular Biology and Evolution
- Publisher
- Oxford University Press (OUP)
- Published
- 1999-01-01
- Volume
- 16
- Issue
- 1
- Pages
- 37-48
- ISSN
- 0737-4038 (ISSN-L)
- 1537-1719
- OpenAlex
- W2096420865
- Cited by
- 11,742
- References
- 14
- Citations by year
- 2026: 408 · 2025: 515 · 2024: 600 · 2023: 660 · 2022: 738 · 2021: 799 · 2020: 794 · 2019: 675 · 2018: 664 · 2017: 690 · 2016: 691 · 2015: 662 · 2014: 623 · 2013: 593 · 2012: 514
- FWCI
- 9.76
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Molecular Biology and Evolution (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic diversity and population structure
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Forensic and Genetic Research
- Keywords
- median-joining network, intraspecific phylogeny, phylogenetic networks, maximum parsimony, homoplasy, multistate characters, mitochondrial DNA, Kruskal's algorithm
- MeSH terms
- Algorithms, DNA, Mitochondrial, Humans, Models, Genetic, Phylogeny, Genome, Human
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