DSpace Repository

Browsing by Author "Dobrynin, Pavel"

Browsing by Author "Dobrynin, Pavel"

Sort by: Order: Results:

  • Chromosomal-level genome assembly of the scimitar-horned oryx: Insights into diversity and demography of a species extinct in the wild 
    Humble, Emily; Dobrynin, Pavel; Senn, Helen; Chuven, Justin; Scott, Alan F.; Mohr, David W.; Dudchenko, Olga; Omer, Arina D.; Colaric, Zane; Lieberman Aiden, Erez; Al Dhaheri, Shaikha Salem; Wildt, David; Oliaji, Shireen; Tamazian, Gaik; Pukazhenthi, Budhan; Ogden, Rob; Koepfli, Klaus-Peter (2020)
    Captive populations provide a valuable insurance against extinctions in the wild. However, they are also vulnerable to the negative impacts of inbreeding, selection and drift. Genetic information is therefore considered a ...
  • Chromosome-Length Assembly of the Baikal Seal (Pusa sibirica) Genome Reveals a Historically Large Population Prior to Isolation in Lake Baikal 
    Yakupova, Aliya; Tomarovsky, Andrey; Totikov, Azamat; Beklemisheva, Violetta; Logacheva, Maria; Perelman, Polina L.; Komissarov, Aleksey; Dobrynin, Pavel; Krasheninnikova, Ksenia; Tamazian, Gaik; Serdyukova, Natalia A.; Rayko, Mike; Bulyonkova, Tatiana; Cherkasov, Nikolay; Pylev, Vladimir; Peterfeld, Vladimir; Penin, Aleksey; Balanovska, Elena; Lapidus, Alla; DNA, Zoo Consortium; OBrien, Stephen J.; Graphodatsky, Alexander; Koepfli, Klaus-Peter; Kliver, Sergei (2023)
    Pusa sibirica, the Baikal seal, is the only extant, exclusively freshwater, pinniped species. The pending issue is, how and when they reached their current habitat—the rift lake Baikal, more than three thousand kilometers ...
  • Chromosomer: a reference-based genome arrangement tool for producing draft chromosome sequences 
    Tamazian, Gaik; Dobrynin, Pavel; Krasheninnikova, Ksenia; Komissarov, Aleksey; Koepfli, Klaus-Peter; O'Brien, Stephen J. (2016)
    BackgroundAs the number of sequenced genomes rapidly increases, chromosome assembly is becoming an even more crucial step of any genome study. Since de novo chromosome assemblies are confounded by repeat-mediated artifacts, ...
  • Comparison of genomic diversity and structure of sable antelope (<I>Hippotragus niger</I>) in zoos, conservation centers, and private ranches in North America 
    Gooley, Rebecca M.; Tamazian, Gaik; Castaneda-Rico, Susette; Murphy, Katherine R.; Dobrynin, Pavel; Ferrie, Gina M.; Haefele, Holly; Maldonado, Jesus E.; Wildt, David E.; Pukazhenthi, Budhan S.; Edwards, Cody W.; Koepfli, Klaus-Peter (2020)
    As we enter the sixth mass extinction, many species that are no longer self-sustaining in their natural habitat will require ex situ management. Zoos have finite resources for ex situ management, and there is a need for ...
  • Conservation Genetics of the cheetah-Lessons Learned and New Opportunities 
    OBrien, Stephen J.; Johnson, Warren E.; Driscoll, Carlos A.; Dobrynin, Pavel; Marker, Laurie (2017)
  • Draft de novo Genome Assembly of the Elusive Jaguarundi, Puma yagouaroundi 
    Tamazian, Gaik; Dobrynin, Pavel; Zhuk, Anna; Zhernakova, Daria, V.; Perelman, Polina L.; Serdyukova, Natalia A.; Graphodatsky, Alexander S.; Komissarov, Aleksey; Kliver, Sergei; Cherkasov, Nikolay; Scott, Alan F.; Mohr, David W.; Koepfli, Klaus-Peter; O'Brien, Stephen J.; Krasheninnikova, Ksenia (2021)
    The Puma lineage within the family Felidae consists of 3 species that last shared a common ancestor around 4.9 million years ago. Whole-genome sequences of 2 species from the lineage were previously reported: the cheetah ...
  • GADMA: Genetic algorithm for inferring demographic history of multiple populations from allele frequency spectrum data 
    Noskova, Ekaterina; Ulyantsev, Vladimir; Koepfli, Klaus-Peter; O'Brien, Stephen J.; Dobrynin, Pavel (2020)
    BACKGROUND: The demographic history of any population is imprinted in the genomes of the individuals that make up the population. One of the most popular and convenient representations of genetic information is the allele ...
  • Genome-wide Evidence Reveals that African and Eurasian Golden Jackals Are Distinct Species 
    Koepfli, Klaus-Peter; Pollinger, John; Godinho, Raquel; Robinson, Jacqueline; Lea, Amanda; Hendricks, Sarah; Schweizer, Rena M; Thalmann, Olaf; Silva, Pedro; Fan, Zhenxin; Yurchenko, Andrey A; Dobrynin, Pavel; Makunin, Alexey; Cahill, James A; Shapiro, Beth; Álvares, Francisco; Brito, José C; Geffen, Eli; Leonard, Jennifer A; Helgen, Kristofer M.; Johnson, Warren E.; O'Brien, Stephen J; Van Valkenburgh, Blaire; Wayne, Robert K (2015)
    Summary The golden jackal of Africa (Canis aureus) has long been considered a conspecific of jackals distributed throughout Eurasia, with the nearest source populations in the Middle East. However, two recent reports found ...
  • Genome-wide sequence analyses of ethnic populations across Russia 
    Zhernakova, Daria V.; Brukhin, Vladimir; Malov, Sergey; Oleksyk, Taras K.; Koepfli, Klaus Peter; Zhuk, Anna; Dobrynin, Pavel; Kliver, Sergei; Cherkasov, Nikolay; Tamazian, Gaik; Rotkevich, Mikhail; Krasheninnikova, Ksenia; Evsyukov, Igor; Sidorov, Sviatoslav; Gorbunova, Anna; Chernyaeva, Ekaterina; Shevchenko, Andrey; Kolchanova, Sofia; Komissarov, Alexei; Simonov, Serguei; Antonik, Alexey; Logachev, Anton; Polev, Dmitrii E.; Pavlova, Olga A.; Glotov, Andrey S.; Ulantsev, Vladimir; Noskova, Ekaterina; Davydova, Tatyana K.; Sivtseva, Tatyana M.; Limborska, Svetlana; Balanovsky, Oleg; Osakovsky, Vladimir; Novozhilov, Alexey; Puzyrev, Valery; O'Brien, Stephen J. (2019)
    The Russian Federation is the largest and one of the most ethnically diverse countries in the world, however no centralized reference database of genetic variation exists to date. Such data are crucial for medical genetics ...
  • Genomic legacy of the African cheetah, Acinonyx jubatus 
    Dobrynin, Pavel; Liu, Shiping; Tamazian, Gaik; Xiong, Zijun; Yurchenko, Andrey A.; Krasheninnikova, Ksenia; Kliver, Sergey; Schmidt-Küntzel, Anne; Koepfli, Klaus-Peter; Johnson, Warren E.; Kuderna, Lukas F. K.; García-Pérez, Raquel; Manuel, Marc de; Godinez, Ricardo; Komissarov, Aleksey; Makunin, Alexey; Brukhin, Vladimir; Qiu, Weilin; Zhou, Long; Li, Fang; Yi, Jian; Driscoll, Carlos; Antunes, Agostinho; Oleksyk, Taras K.; Eizirik, Eduardo; Perelman, Polina; Roelke, Melody; Wildt, David E.; Diekhans, Mark; Marques-Bonet, Tomas; Marker, Laurie; Bhak, Jong; Wang, Jun; Zhang, Guojie; O'Brien, Stephen J. (2015)
    BACKGROUND: Patterns of genetic and genomic variance are informative in inferring population history for human, model species and endangered populations. RESULTS: Here the genome sequence of wild-born African cheetahs ...
  • Insights from the rescue and breeding management of Cuvier's gazelle ( <I>Gazella cuvieri</I> ) through whole-genome sequencing 
    Alvarez-Estape, Marina; Fontsere, Claudia; Serres-Armero, Aitor; Kuderna, Lukas F. K.; Dobrynin, Pavel; Guidara, Héla; Pukazhenthi, Budhan S.; Koepfli, Klaus-Peter; Marques-Bonet, Tomas; Moreno, Eulalia; Lizano, Esther (2022)
  • Multiple types of genomic variation contribute to adaptive traits in the mustelid subfamily Guloninae 
    Derezanin, Lorena; Blazyte, Asta; Dobrynin, Pavel; Duchene, David A.; Grau, Jose Horacio; Jeon, Sungwon; Kliver, Sergei; Koepfli, Klaus-Peter; Meneghini, Dorina; Preick, Michaela; Tomarovsky, Andrey; Totikov, Azamat; Fickel, Joerns; Forster, Daniel W. (2022)
    Species of the mustelid subfamily Guloninae inhabit diverse habitats on multiple continents, and occupy a variety of ecological niches. They differ in feeding ecologies, reproductive strategies and morphological adaptations. ...
  • Nicotiana glauca whole-genome investigation for cT-DNA study 
    Khafizova, Galina; Dobrynin, Pavel; Polev, Dmitrii; Matveeva, Tatiana (2018)
    OBJECTIVE: Nicotiana glauca (tree tobacco) is a naturally transgenic plant, containing sequences acquired from Agrobacterium rhizogenes by horizontal gene transfer. Besides, N. glauca contains a wide profile of alkaloids ...
  • Pangolin genomes and the evolution of mammalian scales and immunity 
    Choo, Siew Woh; Rayko, Mike; Tan, Tze King; Hari, Ranjeev; Komissarov, Aleksey; Wee, Wei Yee; Yurchenko, Andrey A.; Kliver, Sergey; Tamazian, Gaik; Antunes, Agostinho; Wilson, Richard K.; Warren, Wesley C.; Koepfli, Klaus-Peter; Minx, Patrick; Krasheninnikova, Ksenia; Kotze, Antoinette; Dalton, Desire L.; Vermaak, Elaine; Paterson, Ian C.; Dobrynin, Pavel; Sitam, Frankie Thomas; Rovie-Ryan, Jeffrine; Johnson, Warren E.; Yusoff, Aini Mohamed; Luo, Shu-Jin; Karuppannan, Kayal Vizi; Fang, Gang; Zheng, Deyou; Gerstein, Mark B.; Lipovich, Leonard; O'Brien, Stephen J.; Wong, Guat Jah (2016)
    Pangolins, unique mammals with scales over most of their body, no teeth, poor vision, and an acute olfactory system, comprise the only placental order (Pholidota) without a whole-genome map. To investigate pangolin biology ...
  • PGD: a pangolin genome hub for the research community 
    Tan, Tze King; Tan, Ka Yun; Hari, Ranjeev; Mohamed Yusoff, Aini; Wong, Guat Jah; Siow, Cheuk Chuen; Mutha, Naresh V. R.; Rayko, Mike; Komissarov, Aleksey; Dobrynin, Pavel; Krasheninnikova, Ksenia; Tamazian, Gaik; Paterson, Ian C.; Warren, Wesley C.; Johnson, Warren E.; O'Brien, Stephen J.; Choo, Siew Woh (2016)
    Pangolins (order Pholidota) are the only mammals covered by scales. We have recently sequenced and analyzed the genomes of two critically endangered Asian pangolin species, namely the Malayan pangolin (Manis javanica) and ...
  • Response to Comment by Faurby, Werdelin and Svenning 
    O'Brien, Stephen J.; Koepfli, Klaus Peter; Eizirik, Eduardo; Johnson, Warren E.; Driscoll, Carlos; Antunes, Agostinho; Schmidt-Kuntzel, Anne; Marker, Laurie; Dobrynin, Pavel (2016)
  • Robust forensic matching of confiscated horns to individual poached African rhinoceros 
    Harper, Cindy; Ludwig, Anette; Clarke, Amy; Makgopela, Kagiso; Yurchenko, Andrey; Guthrie, Alan; Dobrynin, Pavel; Tamazian, Gaik; Emslie, Richard; van Heerden, Marile; Hofmeyr, Markus; Potter, Roderick; Roets, Johannes; Beytell, Piet; Otiende, Moses; Kariuki, Linus; du Toit, Raoul; Anderson, Natasha; Okori, Joseph; Antonik, Alexey; Koepfli, Klaus-Peter; Thompson, Peter; O'Brien, Stephen J. (2018)
    Black and white rhinoceros (Diceros bicornis and Ceratotherium simum) are iconic African species that are classified by the International Union for the Conservation of Nature (IUCN) as Critically Endangered and Near ...
  • Whole Genome Sequencing and Re-sequencing of the Sable Antelope (Hippotragus niger): A Resource for Monitoring Diversity in ex Situ and in Situ Populations 
    Koepfli, Klaus-Peter; Tamazian, Gaik; Wildt, David E.; Dobrynin, Pavel; Kim, Changhoon; Frandsen, Paul B.; Godinho, Raquel; Yurchenko, Andrey A.; Komissarov, Aleksey; Krasheninnikova, Ksenia; Kliver, Sergei; Kolchanova, Sofia; Gonçalves, Margarida; Carneiro, Miguel; Vaz Pinto, Pedro; Ferrand, Nuno; Maldonado, Jesús E.; Ferrie, Gina M.; Chemnick, Leona; Ryder, Oliver A.; Johnson, Warren E.; Comizzoli, Pierre; O'Brien, Stephen J.; Pukazhenthi, Budhan S. (2019)
    Genome-wide assessment of genetic diversity has the potential to increase the ability to understand admixture, inbreeding, kinship and erosion of genetic diversity affecting both captive (ex situ) and wild (in situ) ...
  • Whole-genome analysis of giraffe supports four distinct species 
    Coimbra, Raphael T. F.; Winter, Sven; Kumar, Vikas; Koepfli, Klaus-Peter; Gooley, Rebecca M.; Dobrynin, Pavel; Fennessy, Julian; Janke, Axel (2021)
    Species is the fundamental taxonomic unit in biology and its delimitation has implications for conservation. In giraffe (Giraffa spp.), multiple taxonomic classifications have been proposed since the early 1900s.(1) However, ...

Search DSpace

Browse

My Account