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Comparative Analyses of Two Nearly Complete Mitochondrial Genomes of the Liu’s Skink, Plestiodon liui, from South and North Sides of the Yangtze River 长江南北两岸刘氏胸齿兽(Plestiodon liui)两个接近完整线粒体基因组的比较分析
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2022-03-22 DOI: 10.30906/1026-2296-2022-29-1-47-64
Na Wu, Minli Chen, Jinlong Liu, B. Cai, Song-hua Wang, Minggang Xu, Xianguang Guo
In this study we amplified and sequenced the nearly complete mitochondrial DNA of an individual of the Liu’s skink, Plestiodon liui, from south of the Yangtze River. The obtained mitochondrial genome was 17, 945 bp in length, comprising 13 protein-coding genes (PCGs), 22 transfer RNA genes, two ribosomal RNA genes and an incomplete control region (D-loop). Another nearly complete mitogenome of P. liui, from north of the Yangtze River, was retrieved from GenBank and used for comparative analyses. The results showed that the genome organization, base composition, codon usage, and gene arrangement of the mitochondrial genomes for the two individuals of P. liui were highly similar to each other. Twelve out of 13 PCGs initiated with canonical start codon (ATG), while COX1 started with GTG. The codon usage analysis revealed a preferential use of the LeuCUN, Pro, and Thr codons with the A/U ending. Among the 22 tRNA genes, only tRNA-SerAGY was not folded into a typical cloverleaf secondary structure and had no recognizable DHU stem. The phylogenetic tree inferred from Bayesian inference and maximum likelihood approaches strongly supported that the two individuals of P. liui clustered together, and formed the sister taxon to a clade of P. capito and P. tunganus. All PCGs had undergone a strong purifying selection, whereas 27 residues of the ATP6, COX2, Cytb, ND3, ND4, ND5, ND6 genes might have undergone positive selection. Bayesian molecular dating indicated that the split between P. liui and P. capito – P. tunganus was approximately 9.62 million years ago (Ma). Meanwhile, the coalescence time of the two individuals of P. liui was estimated to be 2.26 Ma with 95% highest posterior density of 1.32 – 3.28 Ma, which fell within the timeframe for the Yangtze River run-through between the late Pliocene to the middle Pleistocene. This finding implied that the Yangtze River run-through had played an important role in the diversification of the Liu’s skink.
在这项研究中,我们扩增并测序了来自长江以南的刘氏石首鱼Plestiodon liui个体的几乎完整的线粒体DNA。获得的线粒体基因组长度为17945bp,包括13个蛋白质编码基因(PCG)、22个转移RNA基因、两个核糖体RNA基因和一个不完全控制区(D-loop)。从GenBank中检索到了另一个几乎完整的长江以北地区柳的有丝分裂基因组,并进行了比较分析。结果表明,这两个个体的线粒体基因组组织、碱基组成、密码子使用和基因排列高度相似。13个PCG中有12个是由经典起始密码子(ATG)启动的,而COX1是由GTG启动的。密码子使用分析显示优先使用以a/U结尾的LeuCUN、Pro和Thr密码子。在22个tRNA基因中,只有tRNA SerAGY没有折叠成典型的三叶草二级结构,并且没有可识别的DHU茎。根据贝叶斯推断和最大似然方法推断出的系统发育树有力地支持了刘氏P.liui的两个个体聚集在一起,并形成了头状P.capito和通氏P.tunganus分支的姐妹分类单元。所有PCG都经过了强烈的纯化选择,而ATP6、COX2、Cytb、ND3、ND4、ND5、ND6基因的27个残基可能经过了阳性选择。贝叶斯分子年代测定表明,P.liui和P.capito–P.tunganus之间的分裂大约在962万年前(Ma)。同时,刘两个个体的聚结时间估计为2.26 Ma,95%的最高后密度为1.32–3.28 Ma,处于上新世晚期至更新世中期长江贯通的时间范围内。这一发现暗示了长江的贯通在刘的皮肤多样化中发挥了重要作用。
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引用次数: 0
First Record of Kurixalus odontotarsus (Ye et Fei, 1993) and Raorchestes longchuanensis (Yang et Li, 1978) (Anura: Rhacophoridae) in Thailand 泰国齿跗龙(叶,1993)和龙川龙(杨,1978)(无尾目:鼠科)的首次记录
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2022-03-22 DOI: 10.30906/1026-2296-2022-29-1-1-18
Yun-He Wu, C. Suwannapoom, N. Poyarkov Jr., Wei Gao, Alex P. Karuno, Zhiyong Yuan, J. Che
Thailand is a global biodiversity hotspot, harboring a striking diversity of species and endemism. However, the amphibian diversity in the region is poorly understood. In this study, the frogs Kurixalus odontotarsus and Raorchestes longchuanensis were collected and recorded for the first time in northern Thailand. This determination was based on specimens previously collected from this region. Morphologically, these specimens displayed good agreement with the original descriptions provided for K. odontotarsus and R. longchuanensis. Phylogenetically, the specimens clustered according to the sequences of type locality of K. odontotarsus and R. longchuanensis with only a small degree of genetic distance. Based on our work, we have extended the latitudinal distribution of K. odontotarsus and R. longchuanensis southward into northern Thailand. Notably, our discovery increases the number of amphibian species recorded in Thailand to 195, and the number of rhacophorid species known to occur in Thailand to 40.
泰国是全球生物多样性热点,拥有惊人的物种多样性和特有性。然而,人们对该地区两栖动物的多样性知之甚少。在本研究中,首次在泰国北部采集并记录了齿跗蛙和龙川蛙。这一确定是基于以前从该地区采集的标本。从形态学上看,这些标本显示出与原始描述的齿跗龙和龙川龙非常一致。在系统发育上,标本按照齿跗龙和龙川龙的模式位置序列聚类,只有很小的遗传距离。基于我们的工作,我们将齿跗龙和龙川龙的纬度分布向南扩展到泰国北部。值得注意的是,我们的发现使泰国记录的两栖动物物种数量增加到195种,已知发生在泰国的rhacophorid物种数量增加了40种。
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引用次数: 0
Age Structure and Life Expectancy in a Stellagama stellio (Linnaeus, 1758) Population from Kütahya, Turkey 土耳其k<s:1>塔哈亚一个星形ama stellio (Linnaeus, 1758)种群的年龄结构和预期寿命
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2021-12-27 DOI: 10.30906/1026-2296-2021-28-6-327-332
Müge Gidiş, Eyup Başkale
The life history traits of the rough-tailed agama, Stellagama stellio (Linnaeus, 1758) in a population from Kütahya, Turkey were described by the skeletochronological method. From a total of 54 individuals, the mean ages ± standard deviation (SD) of males and females were calculated as 5.03 ± 2.076 years and 4.79 ± 1.584 years, respectively, and age distributions were not significantly different between sexes. The age at maturity was 2 years for both sexes. The longevity of females was 8 years, whereas for males it was 9 years. Mean snout-vent length (SVL) ± SD was 101.7 ± 9.6 mm in females and 104.9 ± 14.4 mm in males and did not significantly differ between the two sexes. We examined the sexual dimorphism of S. stellio in relation to the difference in population age structure between the sexes using the skeletochronological method. Male individuals were slightly larger than female individuals at the same age, but this difference was not statistically significant. We also estimated the maximum ages for S. stellio, which agree with other populations in Turkey.
用骨骼年代学方法描述了土耳其k塔哈亚种群中粗尾agama Stellagama stellio (Linnaeus, 1758)的生活史特征。54例个体中,男性和女性的平均年龄±标准差(SD)分别为5.03±2.076岁和4.79±1.584岁,性别间年龄分布无显著差异。两性的成熟年龄均为2岁。女性的寿命为8年,而男性为9年。雌性的平均口鼻长度(SVL)±SD为101.7±9.6 mm,雄性为104.9±14.4 mm,两性之间无显著差异。我们用骨骼年代学方法研究了石竹的两性二态性与两性人口年龄结构差异的关系。同年龄雄性个体略大于雌性个体,但差异无统计学意义。我们还估计了S. stellio的最大年龄,这与土耳其其他种群的年龄一致。
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引用次数: 1
A New Species of Vietnamophryne with an Extended Description of Vietnamophryne orlovi 标题越南红属一新种及越南红属扩展描述
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2021-12-27 DOI: 10.30906/1026-2296-2021-28-6-355-368
T. V. Nguyen, C. Hoang, Jiang Jianping, N. Orlov, Hoa Thi Ninh, Huy Quoc Nguyen, T. Nguyen, T. Ziegler
We describe Vietnamophryne cuongi sp. nov., a new species of microhylid frog from northern Vietnam, based on morphological and molecular differences. Although superficially similar to remaining Vietnamophryne members, the new species differs by a number of diagnostic morphological characters, such as body size, habitus, head dimensions, finger and toe morphology, skin texture, as well as colour pattern. Phylogenetic analyses based on a fragment of the mitochondrial 16S gene place the new species to be sister to V. orlovi, from which it differed by 2.4% genetic divergence. We also describe the first female known of V. orlovi, collected in the forest of Phia Oac-Phia Den National Park, Cao Bang Province. The latter species, for which we provide an extended description herein, was recently described based on the single male type specimen only from the same site in northern Vietnam. Vietnamophryne cuongi sp. nov. is only known from three specimens, two adult females and a juvenile, from the evergreen tropical forest of Ba Vi National Park, Hanoi. As such, it is likely to be at high risk of habitat loss. Considering its high ecological specialization and the small known distribution range of the new species, we propose Endangered as IUCN Red List status.
根据形态和分子差异,我们对越南北部的一种新的微小目蛙Vietnamophryne cuongi sp.nov.进行了描述。尽管表面上与剩余的Vietnamohryne成员相似,但新物种在许多诊断形态学特征上有所不同,如体型、习性、头部尺寸、手指和脚趾形态、皮肤纹理以及颜色模式。基于线粒体16S基因片段的系统发育分析表明,该新物种与orlovi是姐妹物种,其遗传差异为2.4%。我们还描述了在曹邦省Phia Oac Phia Den国家公园的森林中采集的第一只已知的雌性奥洛维病毒。后一个物种,我们在这里提供了扩展的描述,最近是基于仅来自越南北部同一地点的单个雄性模式标本进行描述的。Vietnamophryne cuongi sp.nov.仅从河内巴维国家公园常绿热带森林中的三个标本中已知,其中两个是成年雌性,一个是幼年。因此,它很可能面临栖息地丧失的高风险。考虑到其生态特化程度高,新物种已知分布范围小,我们建议将其列入国际自然保护联盟红色名录。
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引用次数: 3
An Overview of Historical Distribution Patterns of Chalcides ocellatus (Forsskål, 1775) Using Ecological Niche Modelling: the Taurus Mountains as a Refugium 利用生态位模型对美洲黄铜矿历史分布模式的概述(Forsskål,1775):作为避难所的金牛座山脉
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2021-12-27 DOI: 10.30906/1026-2296-2021-28-6-319-326
K. Candan, Ç. Ilgaz, Y. Kumlutaş, Serkan Gül
The Taurus Mountains that have a very rich biodiversity are one of the most important mountain chains in Anatolia. In this study, we examined distribution patterns of Chalcides ocellatus that has a restricted dispersal between the Taurus Mountains from the past to current using ecological niche modeling. The Taurus Mountains have played the role as a refugium area in which C. ocellatus could survive through a period of unfavorable conditions. Especially in the glaciation period, Amanos Mountains in the Middle Taurus as an isolating barrier appeared unsuitable habitats for the lineages of C. ocellatus. This indicated that the lineages of C. ocellatus were formed as a result of habitat fragmentation during the last glacial maximum and last interglacial, and were consequently adapted to different climatic conditions.
金牛座山脉拥有丰富的生物多样性,是安纳托利亚最重要的山脉之一。在这项研究中,我们使用生态位模型研究了从过去到现在在金牛座山脉之间传播有限的角形粉蚧的分布模式。金牛座山脉扮演了一个避难所的角色,在那里C.ocellatus可以在一段不利的条件下生存。尤其是在冰川作用时期,金牛座中部的鹅膏山脉作为一个孤立的屏障,似乎不适合作为C.ocellatus谱系的栖息地。这表明C.ocellatus的谱系是在最后一次冰川盛期和最后一次间冰期栖息地破碎化的结果,因此适应了不同的气候条件。
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引用次数: 0
The «Empty Forest Syndrome» and the Herpetofaunal Communities in Laos (South-Eastern Asia) 老挝(东南亚)的“空林综合症”与疱疹动物群落
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2021-12-27 DOI: 10.30906/1026-2296-2021-28-6-333-347
Tomas Zuklin, Nathanael Maury, Saly Sitthivong, Thong Van Pham, Olivier Le Duc, Cédric Bordes, B. Leprince, Charlotte Ducotterd, Lo Van Oanh, Phimphasone Vilay, Vinh Quang Luu, L. Luiselli
Nowadays, Laos remains one of the scientifically least known countries of Asia in terms of herpetological knowledge. Here, we evaluate composition of species in freshwater ecosystems (main river courses) and terrestrial ecosystems (forests) in two distinct regions using Visual Encounter Surveys along designed transects, examination of fishers’ catches and standardized interviews. In Northern Laos, we recorded only 18 reptile individuals (2 turtle and 1 snake species). Interview surveys demonstrated that in Nam Xam River, fishers are more likely to hunt turtles and we identified one potential site where the world’s rarest turtle, Rafetus swinhoei, could be still present in the wild. In Nam Et Phou Louey National Park, we found 19 reptile species (8 lizard, 10 snake, 1 turtle species) in the different study sites, demonstrating a low species density in all different surveyed habitats. In Central/Southern Laos, we observed 30 species of reptiles (14 snake, 16 lizard, 35 amphibian species). Our study offers preliminary insights into the composition of amphibians and reptiles in Laos. The great majority of the species were non-threatened or not evaluated, and a few were threatened, suggesting that more research is needed to proper understand the conservation status of Laos’ herpetofauna. We highlighted, indirectly by interviews with local fishers, the possible presence of the turtle Rafetus swinhoei, thus providing a new hope for avoiding the extinction of this species. Finally, we observed a relatively low number of species in each habitat type, which is remarkably lower than in tropical forests of other continents or of nearby south-east Asian countries, indicating that the herpetofauna communities in Laos are depleted, reflecting an ‘empty forest syndrome’.
如今,老挝仍然是亚洲最不为人所知的爬虫学国家之一。在这里,我们评估了两个不同区域的淡水生态系统(主要河道)和陆地生态系统(森林)的物种组成,方法是沿着设计的样带进行视觉接触调查,检查渔民的捕捞量和标准化访谈。在老挝北部,我们只记录到18只爬行动物个体(2只乌龟和1只蛇)。访谈调查表明,在南萨姆河,渔民更有可能捕猎海龟,我们确定了一个潜在的地点,那里可能仍然存在着世界上最稀有的龟,Rafetus swinhoei。在Nam Et Phou Louey国家公园,我们在不同的研究地点发现了19种爬行动物(8种蜥蜴,10种蛇,1种乌龟),表明在不同的调查生境中物种密度都很低。在老挝中南部共发现爬行动物30种(蛇14种,蜥蜴16种,两栖动物35种)。我们的研究为老挝两栖动物和爬行动物的组成提供了初步的见解。绝大多数物种未受到威胁或未被评估,少数物种受到威胁,这表明需要更多的研究来正确了解老挝的爬行动物区系的保护状况。我们通过与当地渔民的访谈间接强调了可能存在的龟,从而为避免该物种的灭绝提供了新的希望。最后,我们观察到每种栖息地类型的物种数量相对较低,明显低于其他大陆或邻近东南亚国家的热带森林,这表明老挝的爬行动物群落已经枯竭,反映了“空林综合症”。
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引用次数: 4
Preliminary Assessment of the Diversity and Habitat Preferences of Herpetofauna in Cholistan Desert, Pakistan 巴基斯坦乔里斯坦沙漠小型Herpetofauna多样性和栖息地偏好的初步评估
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2021-12-27 DOI: 10.30906/1026-2296-2021-28-6-375-379
W. Ali, A. Javid, A. Hussain, S. M. Bukhari, S. Hussain
This one-year survey was conducted from February 2017 to January 2018 to assess the herpetofaunal diversity in Cholistan desert, Bahawalnagar district, Punjab, Pakistan. Field surveys were conducted during dawn and dusk for fifteen consecutive days in alternate months and five sub sampling sites were sampled at ten field visits. Specimens were collected through hand capture, using snake sticks, forceps, drag nets, noose traps, pitfall and funnel traps. Overall, two species of toads, two species of frogs, two species of turtles, ten lizards species and ten snake species belonging to 23 genera and 14 families were recorded. Simpson index was calculated as 0.933, evenness 0.733 and Shannon – Wiener index was 2.947 indicating moderate to high level of diversity. Bufo stomaticus (Pi = 0.1253), Uromastyx hardwickii (Pi = 0.0739) were the dominant amphibian and reptilian species, respectively while Uromastyx asmussi was recorded for the first time in the study area. Hand capture and pitfall traps appeared to be the most effective methods to capture the amphibian and reptiles. The distribution ranges of amphibians and reptiles have changed and such surveys are necessary to update baseline information in the country. We recommend further systematic survey work and molecular analysis of the native species be undertaken in the future to supplement our findings.
这项为期一年的调查于2017年2月至2018年1月进行,旨在评估巴基斯坦旁遮普邦Bahawalnagar区Cholistan沙漠的爬虫动物多样性。在交替的几个月里,在黎明和黄昏连续15天进行实地调查,在10次实地考察中对5个亚采样点进行了采样。标本是通过手工捕获,使用蛇棒、钳子、拖网、套索陷阱、陷阱和漏斗陷阱收集的。总共记录了14科23属的2种蟾蜍、2种青蛙、2种海龟、10种蜥蜴和10种蛇。Simpson指数为0.933,均匀度为0.733,Shannon–Wiener指数为2.947,表明多样性处于中高水平。口蟾蜍(Pi=0.1253)和硬尾乌鱼(Pi=0.0739)分别是两栖类和爬行动物的优势物种,而小尾乌鱼在研究区是首次记录到。手动捕捉和陷阱似乎是捕捉两栖动物和爬行动物最有效的方法。两栖动物和爬行动物的分布范围已经改变,有必要进行此类调查,以更新该国的基线信息。我们建议未来对本地物种进行进一步的系统调查和分子分析,以补充我们的发现。
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引用次数: 1
Distribution Patterns and Ecological Niches of the Red-tongued Pit Viper (Gloydius ussuriensis) and the Central Asian Pit Viper (Gloydius intermedius) in Cheonmasan Mountain, South Korea 韩国天马山红舌坑蛇(Gloydius ussuriensis)和中亚坑蛇(Gloydius intermedius)的分布格局和生态位
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2021-12-27 DOI: 10.30906/1026-2296-2021-28-6-348-354
M. Do, Ki-Baek Nam
Studies on the distribution of species are important to understanding the interspecific ecological niche and habitat selection through geographic environmental information. Particularly, vipers in the same genus have been an important topic because they show differences in the preferred geographical environment, depending on the distance of the phylogenetic relationship. This study investigated the geographical environment of red-tongued pit vipers (Gloydius ussuriensis) and Central Asian pit vipers (Gloydius intermedius) in the mountainous area, Cheonmasan Mountain County Park, South Korea, from April 2012 to October 2014, to understand the relationships among their habitat characteristics and ecological niche. Red-tongued pit vipers mainly lived in low altitude, wet valley areas with a low solar reflectance, while Central Asian pit vipers inhabited high altitude, dry land with large amounts of sunshine. As a result, our study supports that the ecological niche of red-tongued pit vipers and Central Asian pit vipers, inhibiting in Cheonmasan Mountain was overlapped low according to the majority of geographical environmental variables. The differentiated diet preference might be took into consideration as one of the potential key factors to the ecological niche differentiation among two species.
物种分布的研究对于通过地理环境信息了解种间生态位和生境选择具有重要意义。特别是,同一属的毒蛇一直是一个重要的课题,因为它们在首选的地理环境中表现出差异,这取决于系统发育关系的距离。本研究于2012年4月至2014年10月对韩国天马山县公园山区红舌坑蛇(Gloydius ussuriensis)和中亚坑蛇(Gloydius intermedius)的地理环境进行了调查,以了解其栖息地特征与生态位之间的关系。红舌蝮蛇主要生活在太阳反射率低的低海拔、潮湿的山谷地区,而中亚蝮蛇则生活在阳光充足的高海拔、干燥的土地上。结果表明,从大部分地理环境变量来看,天马山地区红舌蝮蛇和中亚蝮蛇的生态位是低重叠的。不同的饮食偏好可能是影响两种间生态位分化的潜在关键因素之一。
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引用次数: 3
David B. Wake (1936 – 2021), Salamander Specialist and Evolutionary Biologist David B.Wake(1936–2021),蝾螈专家和进化生物学家
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2021-12-27 DOI: 10.30906/1026-2296-2021-28-6-380-382
A. Bauer
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引用次数: 0
Predation on Common Wall Lizards: Survival Probabilities of Melanic Individuals 捕食普通壁虎:黑色个体的生存概率
IF 0.7 4区 生物学 Q3 ZOOLOGY Pub Date : 2021-12-27 DOI: 10.30906/1026-2296-2021-28-6-369-374
J. Purger, R. Bocz
For estimation of predation plasticine models of prey animals are often used, because the soft material preserves imprints left by predators. We assumed that melanic common wall lizards (Podarcis muralis) disappear by selective predation faster than cryptic individuals and habitat features have important role in this process. We studied the survival probabilities of cryptic and melanic colored plasticine common wall lizard models in habitats with different background coloration on selected places near the city of Pécs (south Hungary), where melanic common wall lizards had been observed earlier. Contrary to our expectations the daily survival rates of melanic plasticine common wall lizards were somewhat higher in all three locations (sandstone quarry, stone wall, coal pit) than those of the cryptic ones, but these differences were not significant. Predators were mostly mammals, which left more marks on plasticine models than birds, but we could not show a preference of the body parts of prey. We concluded that rare occurrence of melanic common wall lizards in habitats near the city of Pécs is not due to predation pressure.
为了估计捕食,经常使用猎物的橡皮泥模型,因为软材料保存了捕食者留下的印记。我们假设黑色素普通壁蜥蜴(Podarcis muralis)通过选择性捕食而消失的速度比隐蔽个体更快,栖息地特征在这一过程中起着重要作用。我们研究了在佩茨市(匈牙利南部)附近的选定地点,在具有不同背景颜色的栖息地中,隐色和黑色素的橡皮泥普通墙蜥蜴模型的生存概率,在那里早期观察到黑色素普通墙蜥蜴。与我们的预期相反,在所有三个地点(砂岩采石场、石墙、煤矿),黑泥普通壁蜥蜴的日存活率都略高于神秘蜥蜴,但这些差异并不显著。捕食者大多是哺乳动物,它们在橡皮泥模型上留下的痕迹比鸟类多,但我们无法显示出对猎物身体部位的偏好。我们得出的结论是,在佩茨市附近的栖息地中,黑色素普通壁蜥蜴的罕见并非由于捕食压力。
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引用次数: 0
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Russian Journal of Herpetology
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