NEWS AND NOTES
- SW12 slice (head) is added to the SlidableWorm.
- SW11 slice (head) is added to the SlidableWorm.
- SW10 slice (head) is added to the SlidableWorm.
- SW8 slice (head) is added to the SlidableWorm.
- Compilation of images of all neurons (online and as pdf download), all pharyngeal neurons (online and as pdf download) and images of longitudinal tracts with ganglia (online and as pdf download) are added to the Neuron appendix in Handbook. The original sources for the compiled images are noted throughout WA.
- SW7 and SW9 slices (head) are added to the SlidableWorm.
- The glossary of anatomical terms is now fully functional and has been updated with new entries and links for all content.
- New C. elegans Atlas, based upon Wormatlas, is now available in print format from CSHLP (www.cshlpress.com. Print date: January 2008).
- T glossary has been added to the glossary of anatomical terms.
- V glossary has been added to the glossary of anatomical terms.
- U and W glossaries have been added to the glossary of anatomical terms.
- X, Y and Z glossaries have been added to the glossary of anatomical terms.
- S glossary has been added to the glossary of anatomical terms.
- R glossary has been added to the glossary of anatomical terms.
- SlidableWorm applet of WA has been updated to accomodate the newer browsers. In this new version, Wormviewer and Wormtiler functions have been consolidated to a single function.
- Wormatlas is in the process of server expansion. If you experience any problems connecting to Wormatlas meanwhile, you may access the mirror site at http://wormatlas.psc.edu/
M glossary has been added to the glossary of anatomical terms.
L glossary has been added to the glossary of anatomical terms.
WormAtlas Discussion Forum is being retired, and replaced by the Worm Community Forum which combines bionet.celegans, Wormbase and Wormatlas dicussion forums to offer a single site for discussion about C. elegans and related nematodes. Users are required to reactivate their accounts at the new forum using the passwords sent to them via e-mail.
Andrew Z.Fire and Craig C. Mello received the Nobel Prize in Physiology and Medicine.
Wormimage has a mirror site established. Note Wormimage mirror URL: http://wormimage.psc.edu
Guidelines for how to cite Wormatlas in publications have been added to the GUIDES section.
K glossary has been added to the glossary of anatomical terms.
I glossary and J glossary have been added to the glossary of anatomical terms.
H glossary has been added to the glossary of anatomical terms.
G glossary has been added to the glossary of anatomical terms.
We have created a mirror site for C. elegans promoter::GFP fusions expression patterns database, generated by BC C. elegans Gene Expression Consortium, on our server.
Fully updated wiring data for 280 nonpharyngeal neurons of the worm has been added to the Nervous System chapter of The Handbook. Any work utilizing this data should make a reference to Chen B.L. et al, 2006 (PNAS vol. 103 pp. 4723-4728).
A new search function replacing the old one has been installed.
WormImage has grown, and now has >5000 TEM images. You can view the best wild type animals of the MRC and AECOM collections. Color codes help to ID cell types, and many cells and tissues are searchable. Various categories include transverse or longitudinal views; embryo, larva, dauer, or adult; male or hermaphrodite. More images are added each month.
General Anatomy Introductory Chapter has been completely revised. Both the revised version (2006 edition) and the older version (2002-2005 edition) can be accessed through the contents link currently.
A description of the male reproductive system has been added to the Male Handbook. See Reproductive System of the Male - Part I: General Description, Part II: Somatic Gonad and Part III: Germ line.
A description of the male proctodeum has been added to the Male Handbook. See Epithelial System of the Male - Part III.
A chapter describing support and neuronal cells in sensory organs of the male (rays, spicules, hook, post-cloacal sensilla, cephalic and phasmid sensilla) has been added to the Male Handbook. See Epithelial System of the Male - Part II for overview.
A chapter describing male hypodermis and lateral seam has been added to the Male Handbook. See Epithelial System of the Male - Part I
Our web-based, searchable image archiving and retrieval database for C. elegans anatomy, Wormimage, is launched for testing. Images can be retrieved either by Search function (query according to sex, age, genotype) or Index function (query according to animal name, body region and developmental stage). Registered users will be able to utilize the database in a nonpublicly available manner through the Log-in page (Under construction). Please send us your questions and comments.
3-D reconstruction of GFP-expressing AIZ, RIF and RIG added to Individual Neurons.
An animation of Hermaphrodite Gonadogenesis has been added to the Reproductive System - Part III, The Germ Line - of the Hermaphrodite Handbook. This movie, created by Rob Stupay, was kindly provided by E. J. Hubbard.
3-D reconstructions of various anatomical structures created from the strains that were generated by the C. elegans gene expression consortium have been added to WA (all reconstructions were done by R. Newbury unless otherwise noted):
A new chapter describing the Muscles of the Male - Part I and Part II, showing previously unpublished MRC data, has been added to the Male Anatomy Handbook.
Muscle Part II (Somatic muscle) section has been added to the handbook.
Cephalic sensilla section of the Handbook has been revised with newly added GFP images of Cephalic Sheath cells.
Muscle Part I (Overview) and Muscle Part III (Nonstriated muscle) sections have been added to the handbook. You can see a movie of reconstruction of neck muscle arms in Part I.
More connectivity data from the "Male Wiring Project" has been added to Individual Neurons (see AS11, DA8, DA9, DD6, DVE, DVF, PDA, PDC, PGA, PVP, PVT, PVY).
Methods for Cell Identification has been updated and now includes general guides to male tail cells plus an excellent guide to Post Cloacal Sensilla and Spicule cells (by L. Rene Garcia). This latter guide can also be viewed via the "Cell ID" links on PCAL/R, PCBR/L, PCCR/L and SPCL/R Individual Neuron pages.
A mirror site is created for WA at Pittsburgh Supercomputing Center. The mirror link is recommended for bookmarking.
New male neuron connectivity data from the "Male Wiring Project" has been added to Individual Neurons (Post Cloacal Sensilla neurons PCAL/R, PCBR/L, PCCR/L and spicule neuron SPCL/R)
Specialized partners within Hypodermis Part II -Neuronal Support Cells is expanded.
Some helpful instructions for connectivity of the nervous system are available.
The final part of The Reproductive System - The Egg-laying Apparatus Part IVa (uterus, vulva) and IVb (sex muscles, egg-laying neurons) has been added to the handbook.
We are conducting a short USER SURVEY with the Pittsburgh Supercomputing Center to establish the community's interest in an interactive image archive and communication database. We would greatly appreciate your input.
The first chapter of The MALE HANDBOOK - Introduction-Part I and -II - is now online. Also, new male neuron connectivity data, generated by the "Male Wiring Project", has been added to Individual Neurons (neurons HOB, R3BL/R)
Alimentary System Part 2-The Intestine has been expanded.
WormAtlas Discussion Forum added to promote open discussions regarding anatomical methods for C. elegans, or any questions concerning worm anatomy. Queries and responses are welcome from anyone in the community. Please note that general C. elegans questions should be directed to bionet. C.elegans newsgroup.
Freeze substitution in Potassium Permanganate (pdf file) by Robby Weimer is added to Experimental EM methods.
Alimentary System Part 1b-Pharyngeal Nervous System has been expanded.
WA can be searched by using the search option on this page. When searching for individual cells, left or right side specification ( e.g. *AIYL* or *AIYR*) may improve the result.
High pressure freezing/freeze-substitution of C. elegans embryos and L1 worms by Richard Fetter is added to Experimental EM methods.
We created a new section in Anatomical Methods for protocols that are currently being tested or newly developed. This section is titled: "Experimental EM methods" and is open to user input and comments either directly to the author or WA. We are planning to add a discussion forum to this section in the future where comments can be accessed by the users.
Neuron data appendix have been moved into the Nervous System Section of the Handbook. Individual neurons can be accessed by clicking on the "Individual Neurons" icon seen on this page.
Reproductive system (Part I- Overview, Part II-Somatic gonad, Part III-Germ line) sections are added to the Handbook.
GLR section is added to the Handbook.
XXX cell section in Specialized Epithelial Cells Part III has been expanded.
Head Mesodermal Cell section is added to the Handbook.
Cuticle section is added to the Handbook.
Quicktime movie of stacking of vpi cells can be seen in Alimentary System Part I.
the Pharynx section has been revised.
System is added to the Handbook.
Alimentary System Part III-The
Rectum and Anus is added to the Handbook.
structure of the C. elegans secretory-excretory system by F. K. Nelson et
al. is online.
Alimentary System Part II-The
Intestine is added to the Handbook.
Sensory Cilia in the Nematode C. elegans by L. A. Perkins et al.
Buccal Capsule of C. elegans (Nematoda: Rhabditoidea): An Ultrastructural
Study by K. A Wright and
J. N. Thomson is online.
the C. elegans Glossary is
Alimentary System Part I-The
Pharynx is added to the Handbook.
Postembryonic Cell Lineages of the Hermaphrodite and Male Gonads in C. elegans
by J. Kimble and D. Hirsh is online.
the C. elegans Glossary is
Embryonic Cell Lineage of the Nematode C. elegans by J. E. Sulston
et al. is online. Note, the
updated versions of the lineage trees shown in this publication can be viewed
by clicking on the "Lineage
C. elegans Male: Postembryonic Development of Nongonadal Structures
by J. E. Sulston et al. is online.
cell lineages of the nematode, C. elegans by J.E. Sulston and R.H. Horvitz
is online. Note, the updated
versions of the lineage trees shown in this publication can be viewed by clicking
on the "Lineage
tree" icon above.
the C. elegans Glossary is
Pharynx of C. elegans by D. G. Albertson and J. N. Thomson is online.
of the C. elegans Glossary
partners within Hypodermis Part
III -Other Epithelial Support Cells is added to the Handbook.
Specialized partners within Hypodermis
Part II -Neuronal Support
Cells is added to the Handbook.
Note Correction (pers. comm with
D. Miller): Recent findings suggest that opt-3 is expressed in AVER and
not in AVAR. AVA and AVE neuron pages have been corrected accordingly.
The first part (A)
of the C. elegans Glossary is online.
Specialized partners within Hypodermis
Part I -Seam Cells is
added to the Handbook.
Brenner, J. E. Sulston, and H. R. Horvitz received the Nobel Prize in Physiology
section is added to the handbook .
section is added to the handbook.
tree images have been added to Wormatlas. Click on the thumbnail image to
view the list.
is online. You are recommended to read the userguide
for directions to use SW-Wormviewer and SW-Wormtiler.
Slidable worm-Wormviewer is back
We are currently fixing some problems
related to Slidable Worm. It will be back online soon.
Slidable worm, currently harboring
12 annotated images, has been added to Wormatlas. If you are a Mac computer
user, you can view Slidable worm with the internet browsers; Netscape
communicator 6.2 or
Internet Explorer . This restriction is brought about by the requirements
of the applet code which is not supported by the earlier versions of Netscape
communicator for Mac. The preliminary table of SW images has been moved to here.
Please note, however, this table will not be updated from now on and new images
will only be added to the applet. It is also highly recommended that you read
the directions about how to use the
applet before viewing the Slidable Worm.
This atlas concentrates first on
features of the adult anatomy of the hermaphrodite nematode, followed by a concise
description of key differences in the adult male anatomy. At a later date, we
will also try to provide comprehensive coverage of the anatomy of the L1 larva,
and where feasible, some features of embryonic development. All features are
described from the species Caenorhabditis elegans, and concentrate on the wild
type. In the future we look forward to illustrating key mutant phenotypes of
this species, using a similar format. It remains difficult to provide extensive
illustrations of these tissues within the scientific literature in journal articles,
and we expect that this type of enhanced database should prove useful to many
studies.This atlas is aimed to make nematode anatomy relatively simple and accessible
to everyone. We welcome your inputs, comments, and submissions. Any submitted
data will appear in WA with proper academic credit given to the original submitter.
It is highly recommended that the
user guide is read before going through the other pages in this atlas, since
the user guide will help you utilize the data herein optimally.
Wormatlas is being prepared in close
collaboration with the Wormbase; throughout WA you will find links to relevant