Chan, Ho Fai. / Thesis (M.Phil.)--Chinese University of Hong Kong, 2008. / Includes bibliographical references (leaves 59-60). / Abstracts in English and Chinese. / Chapter 1 --- Introduction --- p.5 / Chapter 2 --- Current methods on Neighbor-Joining --- p.9 / Chapter 2.1 --- Introduction to graph theory --- p.9 / Chapter 2.2 --- General discussion on visualizing distance matrices by binary trees --- p.18 / Chapter 2.3 --- Original 0(N5) Neighbor-Joining algorithm --- p.21 / Chapter 2.4 --- Speedup of NJ --- p.22 / Chapter 2.4.1 --- 0(N3) NJ for arbitrary distance matrices --- p.23 / Chapter 2.4.2 --- 0(N2) NJ on additive matrices --- p.23 / Chapter 3 --- Finding neighbor pairs --- p.25 / Chapter 3.1 --- Properties of Binary trees --- p.25 / Chapter 3.2 --- Similar rows: finding all neighbor pairs in additive matrices --- p.28 / Chapter 4 --- Divide-and-Conquer Neighbor-Joining --- p.35 / Chapter 4.1 --- DCNJ Algorithm --- p.36 / Chapter 4.2 --- Theories of DCNJ on additive matrices: Correctness and Complexity --- p.44 / Chapter 5 --- Experimental Results --- p.56 / Chapter 6 --- Conclusions --- p.58

Graduation date: 1998

Thesis (Ph. D.)--University of Hong Kong, 2006. / Title proper from title frame. Also available in printed format.

Thesis (Ph. D.)--University of Missouri-Columbia, 2003. / Typescript. Vita. Includes bibliographical references (leaves [128]-144). Also available on the Internet.

Thesis (Ph. D.)--University of Missouri-Columbia, 2003. / Typescript. Vita. Includes bibliographical references (leaves [128]-144). Also available on the Internet.

A high-resolution computer-based survey for transposable elements performed on 910 Kb of rice genomic DNA sequences revealed the presence of both class I and class II transposable elements. Elements from most major families of plant transposable elements were identified, and new groups were reported for these families. Miniature inverted-repeat transposable elements (MITES) are clearly the predominant type of transposable element in the rice sequences examined. Phylogenetic analysis of the putative transposases of several transposable elements indicated that Tourist-like miniature inverted-repeat transposable elements (MITES) are closely related to the bacterial insertion sequence 5 (IS5) family of transposable elements, while Emigrant-like and Stowaway-like MITES are both related to members of the IS630/TcI/mariner superfamily of elements. Finally, the nucleotide sequences of MITES, Ac-like, Mutator-like elements (MULE), short interspersed nuclear elements (SINEs) and other unclassified elements, as well as their insertion polymorphism data have been used to reconstruct the relationships between rice species in the AA genome. The use of a combination of transposable element data sets generated the most reliable cladograms.

A thorough taxonomic revision of the tribe Phisidini is completed. Fourteen genera and 96 species (of which 8 genera and 59 species are new) are described, redescribed or diagnosed and illustrated. Five previously described species are synonymized, one homonym is renamed. African species formerly assigned to Phisis are now excluded. The morphology of the tribe, particularly the terminology of the male genitalia, is clarified. A phylogeny of the tribe, upon which the classification is proposed, is suggested. Keys at both supraspecific and species levels are given. Details of known geographical distribution ranges and patterns for each species are indicated; the significant geographical variations are discussed for some species. The possible origin and spread of the tribe is discussed on the basis of inferred phylogeny and present distribution; that is, this tribe probably has a Gondwanaland origin, both vicariance and trans-ocean dispersal being likely to have affected its speciation.

Thesis (Ph. D.)--University of Hawaii at Manoa, 2004. / Includes bibliographical references (leaves 349-373). / Also available by subscription via World Wide Web / x, 373 leaves, bound ill. 29 cm

Thesis (M.S.)--Oregon State University, 1993. / Includes mounted photographs. Typescript (photography). Includes bibliographical references. Also available on the World Wide Web.

Thesis (Ph. D.)--University of Missouri-Columbia, 1997. / Typescript. Vita. Includes bibliographical references. Also available on the Internet.