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Books
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Family Bombyliidae - Bee Flies

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A DIPTERIST'S HANDBOOK, Second Edition
By Peter Chandler, editor, with contributions by 42 other authors
Amateur Entomologists' Society, UK, 2010
This handbook provides a valuable reference for everyone interested in the study of flies, both beginners and experienced dipterists. Since the first edition appeared in 1978, there have been considerable advances in knowledge of Diptera, and new techniques and equipment used in their study have developed. The Handbook has been fully updated and new subjects have been added so that it has grown substantially to more than twice the size of the first edition.

Find at Bioquip.

Flies The Natural History & Diversity of Diptera
By Stephen A. Marshall
Firefly Books, 2012
WOW

Kleptoparasitism and phoresy in the Diptera
By Sivinski J., Marshall S.A., Petersson E.
Florida Entomologist 82: 179-197, 1999

Episodic radiations in the fly tree of life
By Wiegmann B.M. et al.
Proc. Natl. Acad. Sci. USA 108(14): 5690-5695, 2011

Authors of fly names
By Evenhuis N.L.
Bishop Museum Technical Report No. 51. 181 pp., 2010
Full text
"A preliminary list of all authors who have proposed Diptera names at the family-level or below" (5375 names listed, as of 19.vii.2010)

Manual of Central American Diptera
By Brian V. Brown et al.
NRC Research Press, 2009
Does for Central America what the Manual of Nearctic Diptera did for North America.

Vol. 1, ISBN-13 9780660198330, publisher's page http://www.nrcresearchpress.com/doi/book/10.1139/9780660198330
Vol. 2, ISBN-13 9780660199580, publisher's page http://www.nrcresearchpress.com/doi/book/10.1139/9780660199580

Phylogeny and systematics of Diptera: Two decades of progress and prospects
By Yeates D.K., Wiegmann B.M., Courtney G.W., Meier R., Lambkin C., Pape T.
Zootaxa 1668: 565–590, 2007
Full text
Great reading, among other things.

A guide to the breeding habits and immature stages of Diptera Cyclorrhapha
By P. Ferrar
Entomonograph volume 8, 1987
Part 1 is text; a survey of all literature of ecology and morphology of cyclorrhaphous fly larvae up to 1987. It is organized by family and includes many summary tables for particularly complex families such as Muscidae. Part 2 is all figures. These works are peerless in breadth as reference material and are well written enough to be worth reading in full.

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