QuantWorm: A comprehensive software package for Caenorhabditis elegans phenotypic assays

PLoS ONE

Volumn 9, Issue 1, 2014, Pages

  Jung, Sang Kyu ^a   Aleman Meza, Boanerges ^a   Riepe, Celeste ^a   Zhong, Weiwei ^a  

^a RICE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELASTROL;

ARTICLE; BODY SIZE; CAENORHABDITIS ELEGANS; CAMERA; COMPUTER PROGRAM; CONTROLLED STUDY; EGG LAYING; IMAGE ANALYSIS; IMAGING SYSTEM; LIFESPAN; LOCOMOTION; MEASUREMENT ACCURACY; MICROSCOPE; NONHUMAN; PHENOTYPE; SIGNAL TRANSDUCTION;

ANIMALS; BODY SIZE; CAENORHABDITIS ELEGANS; LOCOMOTION; LONGEVITY; MOLECULAR IMAGING; MUTATION; OVIPOSITION; PHENOTYPE; SOFTWARE;

EID: 84897083860     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0084830     Document Type: Article

References (35)

1. Mathew MD, Mathew ND, Ebert PR (2012) WormScan: A technique for high-throughput phenotypic analysis of Caenorhabditis elegans. PLoS ONE 7: e33483.
2. Swierczek NA, Giles AC, Rankin CH, Kerr RA (2011) High-throughput behavioral analysis in C. elegans. Nat Methods 8: 592-598.
3. Feng Z, Cronin C, Wittig J, Sternberg P, Schafer W (2004) An imaging system for standardized quantitative analysis of C. elegans behavior. BMC Bioinformatics 5: 115.
4. Wählby C, Kamentsky L, Liu ZH, Riklin-Raviv T, Conery AL, et al. (2012) An image analysis toolbox for high-throughput C. elegans assays. Nat Methods 9: 714-716.
5. Stroustrup N, Ulmschneider BE, Nash ZM, Lopez-Moyado IF, Apfeld J, et al. (2013) The Caenorhabditis elegans Lifespan Machine. Nat Methods 10: 665-670.
6. Moore BT, Jordan JM, Baugh LR (2013) WormSizer: High-throughput analysis of nematode size and shape. PLoS ONE 8: e57142.
7. Ramot D, Johnson BE, Berry Jr TL, Carnell L, Goodman MB (2008) The Parallel Worm Tracker: A platform for measuring average speed and drug-induced paralysis in nematodes. PLoS ONE 3: e2208.
8. Tsibidis G, Tavernarakis N (2007) Nemo: a computational tool for analyzing nematode locomotion. BMC Neurosci 8: 86.
9. Mohamed M, Prasad B, Badawy W (2008) High throughput quantification system for egg populations in Caenorhabditis elegans;. IEEE. 1072-1075.
10. Gosai SJ, Kwak JH, Luke CJ, Long OS, King DE, et al. (2010) Automated high-content live animal drug screening using C. elegans expressing the aggregation prone serpin α1-antitrypsin Z. PLoS ONE 5: e15460.
11. Allison AC, Cacabelos R, Lombardi VRM, Álvarez XA, Vigo C (2001) Celastrol, a potent antioxidant and anti-inflammatory drug, as a possible treatment for Alzheimer's disease. Prog Neuro-Psychopharmacol Biol Psychiatry 25: 1341-1357. (Pubitemid 33022713)
12. Kim DH, Shin EK, Kim YH, Lee BW, Jun JG, et al. (2009) Suppression of inflammatory responses by celastrol, a quinone methide triterpenoid isolated from Celastrus regelii. Eur J Clin Investig 39: 819-827.
13. Sethi G, Ahn KS, Pandey MK, Aggarwal BB (2007) Celastrol, a novel triterpene, potentiates TNF-induced apoptosis and suppresses invasion of tumor cells by inhibiting NF-κB-regulated gene products and TAK1-mediated NF-κB activation. Blood 109: 2727-2735. (Pubitemid 46482064)
14. He M-F, Liu L, Ge W, Shaw P-C, Jiang R, et al. (2009) Antiangiogenic activity of Tripterygium wilfordii and its terpenoids. J Ethnopharmacol 121: 61-68.
15. Brinker AM, Ma J, Lipsky PE, Raskin I (2007) Medicinal chemistry and pharmacology of genus Tripterygium (Celastraceae). Phytochemistry 68: 732-766. (Pubitemid 46330437)
16. Kawli T, Wu C, Tan M-W (2010) Systemic and cell intrinsic roles of Gqα signaling in the regulation of innate immunity, oxidative stress, and longevity in Caenorhabditis elegans. Proc Natl Acad Sci U S A 107: 13788-13793.
17. Fujiwara M, Sengupta P, McIntire SL (2002) Regulation of body size and behavioral state of C. elegans by sensory perception and the EGL-4 cGMP-dependent protein kinase. Neuron 36: 1091-1102. (Pubitemid 36044510)
18. Hu S, Pawson T, Steven RM (2011) UNC-73/Trio RhoGEF-2 activity modulates Caenorhabditis elegans motility through changes in neurotransmitter signaling upstream of the GSA-1/Gαs pathway. Genetics 189: 137-151.
19. Hajdu-Cronin YM, Chen WJ, Patikoglou G, Koelle MR, Sternberg PW (1999) Antagonism between Goα and Gqα in Caenorhabditis elegans: the RGS protein EAT-16 is necessary for Goα signaling and regulates Gqα activity. Genes Dev 13: 1780-1793. (Pubitemid 29353046)
20. Williams SL, Lutz S, Charlie NK, Vettel C, Ailion M, et al. (2007) Trio's Rho-specific GEF domain is the missing Gαq effector in C. elegans. Genes Dev 21: 2731-2746. (Pubitemid 350070720)
21. Yu H, Aleman-Meza B, Gharib S, Labocha MK, Cronin CJ, et al. (2013) Systematic profiling of Caenorhabditis elegans locomotive behaviors reveals additional components in G-protein Gαq signaling. Proc Natl Acad Sci U S A.
22. Stiernagle T (2006) Maintenance of C. elegans. WormBook, ed. The C. elegans Research Community. WormBook.
23. Zhang S, Kuhn JR (2012) Cell isolation and culture. WormBook, ed. The online review of C. elegans biology. WormBook: 1-39.
24. Bradley D, Roth G (2007) Adaptive thresholding using the integral image. J Graphics Tools 12: 13-21.
25. Dong M-Q, Venable JD, Au N, Xu T, Park SK, et al. (2007) Quantitative mass spectrometry identifies insulin signaling targets in C. elegans. Science 317: 660-663. (Pubitemid 47229964)
26. Ch'ng Q, Sieburth D, Kaplan JM (2008) Profiling synaptic proteins identifies regulators of insulin secretion and lifespan. PLoS Genet 4: e1000283.
27. Miller KG, Emerson MD, Rand JB (1999) Goα and diacylglycerol kinase negatively regulate the Gqα pathway in C. elegans. Neuron 24: 323-333. (Pubitemid 29508407)
28. Chase DL, Patikoglou GA, Koelle MR (2001) Two RGS proteins that inhibit Gαo and Gαq signaling in C. elegans neurons require a Gβ5-like subunit for function. Curr Biol 11: 222-231. (Pubitemid 32185324)
29. Morck C, Pilon M (2006) C. elegans feeding defective mutants have shorter body lengths and increased autophagy. BMC Dev Biol 6: 39.
30. Daniels SA, Ailion M, Thomas JH, Sengupta P (2000) egl-4 acts through a transforming growth factor-β/SMAD pathway in Caenorhabditis elegans to regulate multiple neuronal circuits in response to sensory cues. Genetics 156: 123-141.
31. Lackner MR, Nurrish SJ, Kaplan JM (1999) Facilitation of synaptic transmission by EGL-30 Gqα and EGL-8 PLCβ: DAG binding to UNC-13 Is required to stimulate acetylcholine release. Neuron 24: 335-346. (Pubitemid 29508408)
32. Perez-Mansilla B, Nurrish S (2009) Chapter 4 A network of G-protein signaling pathways control neuronal activity in C. elegans. In: Stephen FG, editor. Adv Genet: Academic Press. 145-192.
33. Bastiani C, Mendel J (2006) Heterotrimeric G proteins in C. elegans. WormBook, ed. The C. elegans Research Community. WormBook.
34. Lee J, Jee C, Song H-O, Bandyopadhyay J, Lee JI, et al. (2004) Opposing functions of calcineurin and CaMKII regulate G-protein signaling in egg-laying behavior of C. elegans. J Mol Biol 344: 585-595. (Pubitemid 39441224)
35. Bastiani CA, Gharib S, Simon MI, Sternberg PW (2003) Caenorhabditis elegans Gαq regulates egg-laying behavior via a PLCβ-independent and serotonin-dependent signaling pathway and likely functions both in the nervous system and in muscle. Genetics 165: 1805-1822. (Pubitemid 38040271)