Reference Genome Assembly of the Big Berry Manzanita (Arctostaphylos glauca)

Authors: Huang, Yi, Escalona, Merly, Morrison, Glen, Marimuthu, Mohan P A, Nguyen, Oanh, Toffelmier, Erin, Shaffer, H Bradley, Litt, Amy

Source: Journal of heredity. 113(2):188-196

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100152525277.0x000001&indx=1&recIds=ETOCvdc_100152525277.0x000001

A draft reference genome assembly of California Pipevine, Aristolochia californica Torr.

Authors: Chaturvedi, Samridhi^1,2 (AUTHOR) schaturvedi@tulane.com, Escalona, Merly³ (AUTHOR), Marimuthu, Mohan P A⁴ (AUTHOR), Nguyen, Oanh⁴ (AUTHOR), Chumchim, Noravit⁴ (AUTHOR), Fairbairn, Colin W⁵ (AUTHOR), Seligmann, William⁵ (AUTHOR), Miller, Courtney⁶ (AUTHOR), Shaffer, H Bradley^6,7 (AUTHOR), Whiteman, Noah K^2,8 (AUTHOR) schaturvedi@tulane.com

Source: Journal of Heredity. Sep2024, Vol. 115 Issue 5, p507-515. 9p.

Subject Terms: *RIPARIAN areas, *PAPILIONIDAE, *ENDEMIC species, *PLANT species, *GENOMICS

A genome assembly of the American black bear, Ursus americanus, from California.

Authors: Supple, Megan A^1,2 (AUTHOR) megan.a.supple@gmail.com, Escalona, Merly³ (AUTHOR), Adkins, Jillian⁴ (AUTHOR), Buchalski, Michael R⁵ (AUTHOR), Alexandre, Nicolas^1,2 (AUTHOR), Sahasrabudhe, Ruta M⁶ (AUTHOR), Nguyen, Oanh⁶ (AUTHOR), Sacco, Samuel¹ (AUTHOR), Fairbairn, Colin¹ (AUTHOR), Beraut, Eric¹ (AUTHOR), Seligmann, William¹ (AUTHOR), Green, Richard E³ (AUTHOR), Meredith, Erin⁴ (AUTHOR), Shapiro, Beth^1,2 (AUTHOR)

Source: Journal of Heredity. Sep2024, Vol. 115 Issue 5, p498-506. 9p.

Subject Terms: *WILDLIFE conservation, *BEAR populations, *GENOMICS, *WILDLIFE management, *HUNTING, *BLACK bear

Extant and extinct bilby genomes combined with Indigenous knowledge improve conservation of a unique Australian marsupial.

Authors: Hogg, Carolyn J., Edwards, Richard J., Farquharson, Katherine A., Silver, Luke W., Brandies, Parice, Peel, Emma, Escalona, Merly, Jaya, Frederick R., Thavornkanlapachai, Rujiporn, Batley, Kimberley, Bradford, Tessa M., Chang, J. King, Chen, Zhiliang, Deshpande, Nandan, Dziminski, Martin, Ewart, Kyle M., Griffith, Oliver W., Marin Gual, Laia, Moon, Katherine L., Travouillon, Kenny J.

Source: Nature Ecology & Evolution; Jul2024, Vol. 8 Issue 7, p1311-1326, 16p

A highly contiguous genome assembly for the Yellow Warbler (Setophaga petechia).

Authors: Tsai, Whitney L E^1,2 (AUTHOR) whitney.le.tsai@gmail.com, Escalona, Merly³ (AUTHOR), Garrett, Kimball L⁴ (AUTHOR), Terrill, Ryan S² (AUTHOR), Sahasrabudhe, Ruta⁵ (AUTHOR), Nguyen, Oanh⁵ (AUTHOR), Beraut, Eric⁶ (AUTHOR), Seligmann, William⁶ (AUTHOR), Fairbairn, Colin W⁶ (AUTHOR), Harrigan, Ryan J¹ (AUTHOR), McCormack, John E² (AUTHOR), Alfaro, Michael E¹ (AUTHOR), Smith, Thomas B¹ (AUTHOR), Bay, Rachael A⁷ (AUTHOR)

Source: Journal of Heredity. May2024, Vol. 115 Issue 3, p317-325. 9p.

Subject Terms: *WARBLERS, *WOOD warblers, *GENOMES, *HABITAT conservation, *GENE flow, *SONGBIRDS

Geographic Terms: CALIFORNIA

Remarkably High Repeat Content in the Genomes of Sparrows: The Importance of Genome Assembly Completeness for Transposable Element Discovery.

Authors: Benham, Phred M^1,2, phbenham@gmail.com, Cicero, Carla¹, Escalona, Merly³, Beraut, Eric⁴, Fairbairn, Colin⁴, Marimuthu, Mohan P A⁵, Nguyen, Oanh⁵, Sahasrabudhe, Ruta⁵, King, Benjamin L⁶, Thomas, W Kelley⁷, Kovach, Adrienne I⁸, Nachman, Michael W^1,2, Bowie, Rauri C K^1,2

Source: Genome Biology & Evolution; Apr2024, Vol. 16 Issue 4, p1-21, 21p

A chromosome-level genome assembly for the dugong (Dugong dugon).

Authors: Baker, Dorothy Nevé, Abueg, Linelle, Escalona, Merly, Farquharson, Katherine A, Lanyon, Janet M, Duc, Diana Le, Schöneberg, Torsten, Absolon, Dominic, Sims, Ying, Fedrigo, Olivier, Jarvis, Erich D, Belov, Katherine, Hogg, Carolyn J, Shapiro, Beth

Source: Journal of Heredity; Mar2024, Vol. 115 Issue 2, p212-220, 9p

Subject Terms: DUGONG, MARINE mammals, INTERGLACIALS, GENOMES, GENETIC variation, COMPARATIVE genomics, HETEROZYGOSITY, HOMOZYGOSITY

Geographic Terms: QUEENSLAND, MORETON Bay (Qld.)

The genome assembly of Island Oak (Quercus tomentella), a relictual island tree species.

Authors: Mead, Alayna, Fitz-Gibbon, Sorel T, Escalona, Merly, Beraut, Eric, Sacco, Samuel, Marimuthu, Mohan P A, Nguyen, Oanh, Sork, Victoria L

Source: Journal of Heredity; Mar2024, Vol. 115 Issue 2, p221-229, 9p

Subject Terms: OAK, ISLANDS, SPECIES, CONSERVATION & restoration, TREES, GENOMICS

Geographic Terms: CALIFORNIA, MEXICO

Reference genome of Townsend's big-eared bat, Corynorhinus townsendii.

Authors: Capel, Samantha L R, Hamilton, Natalie M, Fraser, Devaughn, Escalona, Merly, Nguyen, Oanh, Sacco, Samuel, Sahasrabudhe, Ruta, Seligmann, William, Vazquez, Juan M, Sudmant, Peter H, Morrison, Michael L, Wayne, Robert K, Buchalski, Michael R

Source: Journal of Heredity; Mar2024, Vol. 115 Issue 2, p203-211, 9p

Subject Terms: GENOMES, WILDLIFE conservation, GENETIC variation, BATS, GENOMICS, NUCLEOTIDE sequencing, POPULATION genetics

Geographic Terms: CALIFORNIA, NORTH America

Automatic recognition and scoring of olympic rhythmic gymnastic movements

Authors: Díaz-Pereira, M. Pino, Gómez-Conde, Iván, Escalona, Merly, Olivieri, David N.

Source: In Human Movement Science April 2014 34:63-80

A highly contiguous genome assembly for the pocket mouse Perognathus longimembris longimembris.

Authors: Kozak, Krzysztof M¹ (AUTHOR) evoecogen@gmail.com, Escalona, Merly² (AUTHOR), Chumchim, Noravit³ (AUTHOR), Fairbairn, Colin⁴ (AUTHOR), Marimuthu, Mohan P A³ (AUTHOR), Nguyen, Oanh³ (AUTHOR), Sahasrabudhe, Ruta³ (AUTHOR), Seligmann, William⁴ (AUTHOR), Conroy, Chris¹ (AUTHOR), Patton, James L¹ (AUTHOR), Bowie, Rauri C K¹ (AUTHOR), Nachman, Michael W¹ (AUTHOR)

Source: Journal of Heredity. Jan2024, Vol. 115 Issue 1, p130-138. 9p.

Subject Terms: *MICE, *GENETIC variation, *PHYSIOLOGICAL adaptation, *ARID regions, *GENOMICS

Reference genome of the bicolored carpenter ant, Camponotus vicinus.

Authors: Ward, Philip S, Cash, Elizabeth I, Ferger, Kailey, Escalona, Merly, Sahasrabudhe, Ruta, Miller, Courtney, Toffelmier, Erin, Fairbairn, Colin, Seligmann, William, Shaffer, H Bradley, Tsutsui, Neil D

Source: Journal of Heredity; Jan2024, Vol. 115 Issue 1, p120-129, 10p

Subject Terms: CARPENTER ants, SPECIES, PREDATORY animals

Geographic Terms: SONOMA County (Calif.), NORTH America

A genome assembly of the Yuma myotis bat, Myotis yumanensis.

Authors: Curti, Joseph N, Fraser, Devaughn, Escalona, Merly, Fairbairn, Colin W, Sacco, Samuel, Sahasrabudhe, Ruta, Nguyen, Oanh, Seligmann, William, Sudmant, Peter H, Toffelmier, Erin, Vazquez, Juan Manuel, Wayne, Robert, Shaffer, H Bradley, Buchalski, Michael R

Source: Journal of Heredity; Jan2024, Vol. 115 Issue 1, p139-148, 10p

Subject Terms: MYOTIS, VESPERTILIONIDAE, WHITE-nose syndrome, GENOMES, BATS, NUCLEOTIDE sequencing

Geographic Terms: YUMA (Ariz.), NORTH America

De novo assembly of a chromosome-level reference genome for the California Scrub-Jay, Aphelocoma californica.

Authors: DeRaad, Devon A¹ (AUTHOR) devonderaad@gmail.com, Escalona, Merly² (AUTHOR), Benham, Phred M^3,4 (AUTHOR), Marimuthu, Mohan P A⁵ (AUTHOR), Sahasrabudhe, Ruta M⁵ (AUTHOR), Nguyen, Oanh⁵ (AUTHOR), Chumchim, Noravit⁵ (AUTHOR), Beraut, Eric⁶ (AUTHOR), Fairbairn, Colin W⁶ (AUTHOR), Seligmann, William⁶ (AUTHOR), Bowie, Rauri C K^3,4 (AUTHOR), Cicero, Carla³ (AUTHOR), McCormack, John E⁷ (AUTHOR), Wayne, Robert K⁸ (AUTHOR)

Source: Journal of Heredity. Dec2023, Vol. 114 Issue 6, p669-680. 12p.

Subject Terms: *GENOMES, *HAPLOTYPES, *CORVIDAE, *MOLECULAR weights

Geographic Terms: CENTRAL America

A genome assembly for the southern Pacific rattlesnake, Crotalus oreganus helleri, in the western rattlesnake species complex.

Authors: Westeen, Erin P^1,2 (AUTHOR), Escalona, Merly³ (AUTHOR), Holding, Matthew L⁴ (AUTHOR), Beraut, Eric⁵ (AUTHOR), Fairbairn, Colin⁵ (AUTHOR), Marimuthu, Mohan P A⁶ (AUTHOR), Nguyen, Oanh⁶ (AUTHOR), Perri, Ralph⁷ (AUTHOR), Fisher, Robert N⁸ (AUTHOR), Toffelmier, Erin^9,10 (AUTHOR), Shaffer, H Bradley^9,10 (AUTHOR), Wang, Ian J^1,2 (AUTHOR) ianwang@berkeley.edu

Source: Journal of Heredity. Dec2023, Vol. 114 Issue 6, p681-689. 9p.

Subject Terms: *CROTALUS, *RATTLESNAKES, *GENOMES, *SUBSPECIES, *SPECIES, *BASE pairs, *GENOMICS

The reference genome assembly of the bright cobblestone lichen, Acarospora socialis.

Authors: Adams, Julia N^1,2 (AUTHOR), Escalona, Merly³ (AUTHOR), Marimuthu, Mohan P A⁴ (AUTHOR), Fairbairn, Colin W⁵ (AUTHOR), Beraut, Eric⁵ (AUTHOR), Seligmann, William⁵ (AUTHOR), Nguyen, Oanh⁴ (AUTHOR), Chumchim, Noravit⁴ (AUTHOR), Stajich, Jason E^2,6 (AUTHOR) jason.stajich@ucr.edu

Source: Journal of Heredity. Dec2023, Vol. 114 Issue 6, p707-714. 8p.

Subject Terms: *GENOMES, *COMPARATIVE genomics, *GENETIC variation, *LICHENS, *GENOMICS, *CLIMATE change

Geographic Terms: CALIFORNIA, JOSHUA Tree National Park (Calif.)

Company/Entity: UNIVERSITY of California, Riverside

A reference genome assembly for the continentally distributed ring-necked snake, Diadophis punctatus.

Authors: Westeen, Erin P^1,2 (AUTHOR), Escalona, Merly³ (AUTHOR), Beraut, Eric⁴ (AUTHOR), Marimuthu, Mohan P A⁵ (AUTHOR), Nguyen, Oanh⁵ (AUTHOR), Fisher, Robert N⁶ (AUTHOR), Toffelmier, Erin^7,8 (AUTHOR), Shaffer, H Bradley^7,8 (AUTHOR), Wang, Ian J^1,2 (AUTHOR) ianwang@berkeley.edu

Source: Journal of Heredity. Dec2023, Vol. 114 Issue 6, p690-697. 8p.

Subject Terms: *COLUBRIDAE, *SNAKES, *GENOMES, *GENETIC variation, *SPECIES diversity, *SUBSPECIES

A draft reference genome assembly of the Pipevine Swallowtail butterfly, Battus philenor hirsuta.

Authors: Chaturvedi, Samridhi^1,2 (AUTHOR) schaturvedi@tulane.edu, Escalona, Merly³ (AUTHOR), Marimuthu, Mohan P A⁴ (AUTHOR), Nguyen, Oanh⁴ (AUTHOR), Chumchim, Noravit⁴ (AUTHOR), Fairbairn, Colin W³ (AUTHOR), Seligmann, William³ (AUTHOR), Miller, Courtney⁵ (AUTHOR), Shaffer, H Bradley^5,6 (AUTHOR), Whiteman, Noah K^1,7 (AUTHOR) whiteman@berkeley.edu

Source: Journal of Heredity. Dec2023, Vol. 114 Issue 6, p698-706. 9p.

Subject Terms: *PAPILIONIDAE, *GENOMES, *PLANT genomes, *IMMUNOPRECIPITATION, *HOST plants, *INSECT diversity, *GENOMICS, *LANDSCAPE changes

Geographic Terms: CALIFORNIA

A highly contiguous reference genome for the Steller's jay (Cyanocitta stelleri).

Authors: Benham, Phred M, Cicero, Carla, DeRaad, Devon A, McCormack, John E, Wayne, Robert K, Escalona, Merly, Beraut, Eric, Marimuthu, Mohan P A, Nguyen, Oanh, Nachman, Michael W, Bowie, Rauri C K

Source: Journal of Heredity; Sep2023, Vol. 114 Issue 5, p549-560, 12p

Subject Terms: CONSERVATION genetics, WILDLIFE conservation, CORVIDAE, CHROMOSOMES, GENOMICS

Geographic Terms: NICARAGUA, ALASKA

Assembly of the largest squamate reference genome to date: The western fence lizard, Sceloporus occidentalis.

Authors: Bishop, Anusha P, Westeen, Erin P, Yuan, Michael L, Escalona, Merly, Beraut, Eric, Fairbairn, Colin, Marimuthu, Mohan P A, Nguyen, Oanh, Chumchim, Noravit, Toffelmier, Erin, Fisher, Robert N, Shaffer, H. Bradley, Wang, Ian J

Source: Journal of Heredity; Sep2023, Vol. 114 Issue 5, p521-528, 8p

Subject Terms: LIZARDS, GENOMES, FENCES, ECOSYSTEM dynamics, BIOGEOGRAPHY, NUCLEOTIDE sequencing

Geographic Terms: BAJA California (Mexico : State), MEXICO