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Westeen EP, Escalona M, Beraut E, Marimuthu MPA, Nguyen O, Fisher RN, Toffelmier E, Shaffer HB, Wang IJ. A reference genome assembly for the continentally distributed ring-necked snake, Diadophis punctatus. J Hered 2023; 114:690-697. [PMID: 37688363 PMCID: PMC10650948 DOI: 10.1093/jhered/esad051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2023] [Accepted: 09/07/2023] [Indexed: 09/10/2023] Open
Abstract
Snakes in the family Colubridae include more than 2,000 currently recognized species, and comprise roughly 75% of the global snake species diversity on Earth. For such a spectacular radiation, colubrid snakes remain poorly understood ecologically and genetically. Two subfamilies, Colubrinae (788 species) and Dipsadinae (833 species), comprise the bulk of colubrid species richness. Dipsadines are a speciose and diverse group of snakes that largely inhabit Central and South America, with a handful of small-body-size genera that have invaded North America. Among them, the ring-necked snake, Diadophis punctatus, has an incredibly broad distribution with 14 subspecies. Given its continental distribution and high degree of variation in coloration, diet, feeding ecology, and behavior, the ring-necked snake is an excellent species for the study of genetic diversity and trait evolution. Within California, six subspecies form a continuously distributed "ring species" around the Central Valley, while a seventh, the regal ring-necked snake, Diadophis punctatus regalis is a disjunct outlier and Species of Special Concern in the state. Here, we report a new reference genome assembly for the San Diego ring-necked snake, D. p. similis, as part of the California Conservation Genomics Project. This assembly comprises a total of 444 scaffolds spanning 1,783 Mb and has a contig N50 of 8.0 Mb, scaffold N50 of 83 Mb, and BUSCO completeness score of 94.5%. This reference genome will be a valuable resource for studies of the taxonomy, conservation, and evolution of the ring-necked snake across its broad, continental distribution.
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Affiliation(s)
- Erin P Westeen
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, Berkeley, CA 94720, United States
- Museum of Vertebrate Zoology, University of California, Berkeley, Berkeley, CA 94720, United States
| | - Merly Escalona
- Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA 95064, United States
| | - Eric Beraut
- Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, Santa Cruz, CA 95064, United States
| | - Mohan P A Marimuthu
- DNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California, Davis, Davis, CA 95616, United States
| | - Oanh Nguyen
- DNA Technologies and Expression Analysis Core Laboratory, Genome Center, University of California, Davis, Davis, CA 95616, United States
| | - Robert N Fisher
- U.S. Geological Survey, Western Ecological Research Center, San Diego, CA, 92101, United States
| | - Erin Toffelmier
- Department of Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA 90095, United States
- La Kretz Center for California Conservation Science, Institute of the Environment and Sustainability, University of California, Los Angeles, Los Angeles, CA 90095, United States
| | - H Bradley Shaffer
- Department of Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA 90095, United States
- La Kretz Center for California Conservation Science, Institute of the Environment and Sustainability, University of California, Los Angeles, Los Angeles, CA 90095, United States
| | - Ian J Wang
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, Berkeley, CA 94720, United States
- Museum of Vertebrate Zoology, University of California, Berkeley, Berkeley, CA 94720, United States
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Robledo-Ospina LE, Morehouse N, Escobar F, Tapia-McClung H, Narendra A, Rao D. Visual antipredator effects of web flexing in an orb web spider, with special reference to web decorations. Naturwissenschaften 2023; 110:23. [PMID: 37219696 DOI: 10.1007/s00114-023-01849-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Revised: 05/05/2023] [Accepted: 05/09/2023] [Indexed: 05/24/2023]
Abstract
Some visual antipredator strategies involve the rapid movement of highly contrasting body patterns to frighten or confuse the predator. Bright body colouration, however, can also be detected by potential predators and used as a cue. Among spiders, Argiope spp. are usually brightly coloured but they are not a common item in the diet of araneophagic wasps. When disturbed, Argiope executes a web-flexing behaviour in which they move rapidly and may be perceived as if they move backwards and towards an observer in front of the web. We studied the mechanisms underlying web-flexing behaviour as a defensive strategy. Using multispectral images and high-speed videos with deep-learning-based tracking techniques, we evaluated body colouration, body pattern, and spider kinematics from the perspective of a potential wasp predator. We show that the spider's abdomen is conspicuous, with a disruptive colouration pattern. We found that the body outline of spiders with web decorations was harder to detect when compared to spiders without decorations. The abdomen was also the body part that moved fastest, and its motion was composed mainly of translational (vertical) vectors in the potential predator's optical flow. In addition, with high contrast colouration, the spider's movement might be perceived as a sudden change in body size (looming effect) as perceived by the predator. These effects alongside the other visual cues may confuse potential wasp predators by breaking the spider body outline and affecting the wasp's flight manoeuvre, thereby deterring the wasp from executing the final attack.
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Affiliation(s)
- Luis E Robledo-Ospina
- Red de Ecoetología, Instituto de Ecología, A.C., Xalapa, Veracruz, México
- Instituto de Biotecnología y Ecología Aplicada, Universidad Veracruzana, Xalapa, Veracruz, México
| | - Nathan Morehouse
- Department of Biological Sciences, University of Cincinnati, Cincinnati, OH, USA
| | - Federico Escobar
- Red de Ecoetología, Instituto de Ecología, A.C., Xalapa, Veracruz, México
| | - Horacio Tapia-McClung
- Instituto de Investigaciones en Inteligencia Artificial, Universidad Veracruzana, Xalapa, Veracruz, México
| | - Ajay Narendra
- School of Natural Sciences, Macquarie University, Sydney, NSW, 2109, Australia
| | - Dinesh Rao
- Instituto de Biotecnología y Ecología Aplicada, Universidad Veracruzana, Xalapa, Veracruz, México.
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Martin E, Steinmetz HL, Baek SY, Gilbert FR, Brandley NC. Rapid Shifts in Visible Carolina Grasshopper (Dissosteira carolina) Coloration During Flights. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.900544] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Some brightly colored structures are only visible when organisms are moving, such as parts of wings that are only visible in flight. For example, the primarily brown Carolina grasshopper (Dissosteira carolina) has contrasting black-and-cream hindwings that appear suddenly when it takes off, then oscillate unpredictably throughout the main flight before disappearing rapidly upon landing. However, the temporal dynamics of hindwing coloration in motion have not previously been investigated, particularly for animals that differ from humans in their temporal vision. To examine how quickly this coloration appears to a variety of non-human observers, we took high-speed videos of D. carolina flights in the field. For each of the best-quality takeoffs and landings, we performed a frame-by-frame analysis on how the relative sizes of the different-colored body parts changed over time. We found that in the first 7.6 ± 1.5 ms of takeoff, the hindwings unfurled to encompass 50% of the visible grasshopper, causing it to roughly double in size. During the main flight, the hindwings transitioned 6.4 ± 0.4 times per second between pauses and periods of active wing-beating (31.4 ± 0.5 Hz), creating an unstable, confusing image. Finally, during landings, the hindwings disappeared in 11.3 ± 3.0 ms, shrinking the grasshopper to 69 ± 9% of its main flight size. Notably, these takeoffs and landings occurred faster than most recorded species are able to sample images, which suggests that they would be near-instantaneous to a variety of different viewers. We therefore suggest that D. carolina uses its hindwings to initially startle predators (deimatic defense) and then confuse them and disrupt their search images (protean defense) before rapidly returning to crypsis.
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