bycatch

bycatch
  • 文章类型: Journal Article
    Marine elapid snakes are a diverse, predominantly Indo-West Pacific species group. The persistent removal of some species has an unquantified but potentially dire impact on populations. We conducted the first comprehensive review of the trade in marine elapid snakes based on published literature (1974-2022) and trade data from the only species (i.e., Hydrophis [Lapemis] curtus) whose trade is monitored internationally. Some species and populations were subjected to targeted harvest for their meat and skins for at least the last century; fisheries are possibly the most significant threat to populations of marine elapids, with the highest numbers being exploited either accidentally, incidentally, or opportunistically in Southeast Asian fisheries targeting other seafood, including demersal trawl and squid fisheries. Southeast Asia is the core region for exploitation of marine elapids. Annual offtake is >225,000 individuals of at least 8 species in the Gulf of Thailand. Of 72 recognized marine elapids (all non-CITES [Convention on International Trade in Endangered Species of Wild Fauna and Flora] species), Hydrophis curtus and Hydrophis cyanocinctus dominate the skin trade. Skins of H. curtus are traded mainly in East and Southeast Asia and, to some extent, Europe. Despite some baseline information on the trade of these species, the sustainability of their harvests, particularly in the context of the burgeoning and unmanaged nature of fisheries in the region, remains the major challenge. In an era of declining fish stocks, there has been an increasing trend to commercialize the harvest and use marine elapids that were once considered accidental bycatch and discarded. This trend will continue to pose a significant risk to these snakes unless appropriate fisheries and trade regulations are enforced. Applying the precautionary principle to prevent the overexploitation of sea snakes is an indispensable measure in which trade in regional populations should be regulated through CITES. Accordingly, management plans to identify core distribution regions of exploited species would be crucial for assigning national responsibilities to sustain species and populations in the long term.
    Retos para la regulación del uso comercial de serpientes elápidas marinas en el Indo‐Pacífico Resumen Las serpientes elápidas marinas son un grupo diverso de especies, predominante en el Indo‐Pacífico Occidental. La eliminación persistente de algunas especies tiene un impacto no cuantificado pero potencialmente negativo sobre las poblaciones. Realizamos la primera revisión exhaustiva del comercio de serpientes elápidas marinas con base en la bibliografía publicada (1974‐2022) y en los datos comerciales de la única especie (Hydrophis [Lapemis] curtus) cuyo mercado tiene monitoreo internacional. Algunas especies y poblaciones fueron objeto de capturas selectivas por su carne y pieles durante al menos el siglo pasado, las pesquerías son posiblemente la amenaza más importante para las poblaciones de elápidos marinos, ya que el mayor número se explota de forma accidental, incidental u oportunista en las pesquerías del sudeste asiático enfocadas en otros mariscos, incluidas las pesquerías demersales de arrastre y de calamar. El sudeste asiático es la principal región de explotación de elápidos marinos. La captura anual es >225,000 individuos de al menos ocho especies en el Golfo de Tailandia. De los 72 elápidos marinos reconocidos (ninguna especie está en CITES [Convención sobre el Comercio Internacional de Especies Amenazadas de Fauna y Flora Silvestres]), Hydrophis curtus e H. cyanocinctus dominan el mercado de pieles. La piel de H. curtus se comercializa principalemnte en el este y sudeste asiático y, hasta cierto punto, en Europa. Aunque se dispone de cierta información de referencia sobre el comercio de estas especies, la sostenibilidad de sus capturas, sobre todo en el contexto del auge y la falta de gestión de la pesca en la región, sigue siendo el principal reto. En una época de disminución de las poblaciones de peces, ha aumentado la tendencia a comercializar la captura y el uso de elápidos marinos que antes se consideraban capturas accidentales y se descartaban. Esta tendencia seguirá representando un riesgo importante para estas serpientes a menos que se apliquen las regulaciones pesqueras y comerciales adecuadas. La aplicación del principio de precaución para evitar la sobreexplotación de las serpientes marinas es una medida indispensable para regular el comercio de las poblaciones regionales a través de CITES. Por lo tanto, los planes de gestión para identificar las regiones núcleo de distribución de las especies explotadas serían cruciales para asignar responsabilidades nacionales para mantener las especies y las poblaciones a largo plazo.
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  • 文章类型: Journal Article
    Bullnose射线Myliobatisfreminvillei是一种底栖浮游鹰射线,栖息在墨西哥湾北部和大西洋西部海岸,不连续,来自马萨诸塞州,美国到布宜诺斯艾利斯,阿根廷。Myliobatisfreminvillei目前在2019年IUCN濒危物种红色名录中被列为脆弱物种,因为它经常被手工和商业渔业捕获为副渔获物,沿着阿根廷的海岸,巴西,委内瑞拉。这项研究,第一次,组装并表征了M.fremnvillei的线粒体基因组。M.fremnvillei的富含AT的线粒体基因组长18,356bp,编码22个转移RNA基因(tRNA),2核糖体RNA基因(12S核糖体RNA和16S核糖体RNA),13个蛋白质编码基因(PCGs),并且还包含2,617bp的非编码控制区。在所有13个PCG中都观察到非同义密码子的使用优先于富含AT的密码子。Leu(CTA),Ile(ATC),Phe(TTC),Thr(ACA),Ala(GCC)是最常用的密码子。对所有13个PCG估计的Ka/Ks比率表现出<1的值,表明影响所有这些基因的强纯化选择。与先前声称在Mobulatarapacana的两个线粒体PCG中多样化选择压力的研究结果相反,对相同物种的Ka/Ks值的重新分析表明,在所有13个PCGs中都有纯化选择。在22个tRNA基因中,除tRNA-Ser1具有截短的二氢尿苷臂外,它们都具有苜蓿叶二级结构。在控制区,确定了富含AT的微卫星(n=42)和短串联重复序列(n=6),同一区域的二级结构包含许多发夹环。毛细胞基因组分析支持成虫和成虫科的单系状态。组装的线粒体基因组将有助于弗氏Myliobatisfremnvillei的保护工作。
    The Bullnose ray Myliobatis freminvillei is a bentho-pelagic eagle ray that inhabits the north Gulf of Mexico and the Western Atlantic Ocean Coast, discontinuously, from Massachusetts, USA to Buenos Aires, Argentina. Myliobatis freminvillei is currently listed as vulnerable by the 2019 IUCN Red List of Threatened Species given that it is often captured as bycatch by artisanal and commercial fisheries, along the coasts of Argentina, Brazil, and Venezuela. This study, for the first time, assembled and characterized the mitochondrial genome of M. fremnvillei. The A+T rich mitochondrial genome of M. fremnvillei is 18,356 bp long and encodes 22 transfer RNA genes (tRNA), 2 ribosomal RNA genes (12S ribosomal RNA and 16S ribosomal RNA), 13 protein coding genes (PCGs), and also contains a non coding control region of 2,617 bp. Nonsynonomous codon usage with a preference for A+T rich codons was observed in all 13 PCGs. Leu (CTA), Ile (ATC), Phe (TTC), Thr (ACA), and Ala (GCC) were the most frequently used codons. Ka/Ks ratios estimated for all 13 PCGs exhibited values < 1, indicating strong purifying selection affecting all these genes. In contrast to the results of a previous study that claimed diversifying selective pressure in two mitochondrial PCGs of Mobula tarapacana, reanalysis of the Ka/Ks values for the same species indicated purifying selection in all 13 PCGs. Of the 22 tRNA genes, all have a cloverleaf secondary structure except tRNA-Ser1 which has a truncated dihydrouridine arm. In the control region, A+T rich microsatellites (n = 42) and short tandem repeats (n = 6) were identified, and the secondary structure of the same region contained numerous hairpin loops. Phylomitogenomic analyses supported the monophyletic status of the order Myliobatiformes and family Myliobatidae. The assembled mitochondrial genome will assist with conservation efforts in Myliobatis fremnvillei.
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  • 文章类型: Journal Article
    弗朗西斯卡纳海豚是一只小海豚,脆弱的物种经常被手工刺网捕获。本研究旨在通过使用先进的设备来收集宽带的大型数据集来提供对其声学能力的全面评估,连续录音。我们检查了法国海豚的详细声音信号,将被囚禁的修复海豚的声音与渔网附近的野生海豚的声音进行比较。发现新生儿和年长海豚之间的声学特征存在显着差异,幼年和野生海豚表现出相似的特征。第一次,确定了点击生产中的重复模式,强调理解这些声音在喂养和交流方面的重要性。这项研究强调了检测新生儿以保护物种的必要性,并提出了开发针对不同年龄段的声学分类器的潜力。我们的发现为野生海豚的保护工作和保护策略的制定提供了宝贵的见解。
    The franciscana dolphin is a small, vulnerable species often caught in artisanal gillnets. This study aims to provide a comprehensive assessment of their acoustic capabilities by using advanced equipment to collect a large dataset of wideband, continuous recordings. We examined the detailed acoustic signals of franciscana dolphins, comparing the sounds from rehabilitated dolphins in captivity with those of wild dolphins near fishing nets. Significant differences in acoustic characteristics were found between neonates and older dolphins, with juvenile and wild dolphins showing similar features. For the first time, repetition patterns in click production were identified, highlighting the importance of understanding the context of these sounds in regards to feeding and communication. This study emphasizes the need for detecting neonates for species protection and suggests the potential for developing acoustic classifiers specific to different age groups. Our findings offer valuable insights for conservation efforts and the development of protection strategies for franciscana dolphins.
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  • 文章类型: Journal Article
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  • 文章类型: Journal Article
    Purse-seine tropical tuna fishing in the eastern tropical Pacific Ocean (EPO) results in the bycatch of several sensitive species groups, including elasmobranchs. Effective ecosystem management balances conservation and resource use and requires considering trade-offs and synergies. Seasonal and adaptive spatial measures can reduce fisheries impacts on nontarget species while maintaining or increasing target catches. Identifying persistently high-risk areas in the open ocean, where dynamic environmental conditions drive changes in species\' distributions, is essential for exploring the impact of fisheries closures. We used fisheries observer data collected from 1995 to 2021 to explore the spatiotemporal persistence of areas of high bycatch risk for 2 species of oceanic sharks, silky shark (Carcharhinus falciformis) and oceanic whitetip shark (Carcharhinus longimanus), and of low tuna catch rates. We analyzed data collected by fisheries scientific observers onboard approximately 200 large purse-seine vessels operating in the EPO under 10 different flags. Fishing effort, catch, and bycatch data were aggregated spatially and temporally at 1° × 1° cells and monthly, respectively. When areas of high fishing inefficiency were closed the entire study period and effort was reallocated proportionally to reflect historical effort patterns, yearly tuna catch appeared to increase by 1-11%, whereas bycatch of silky and oceanic whitetip sharks decreased by 10-19% and 9%, respectively. Prior to fishing effort redistribution, bycatch reductions accrued to 21-41% and 14% for silky and oceanic whitetip sharks, respectively. Our results are consistent with previous findings and demonstrate the high potential for reducing elasmobranch bycatch in the EPO without compromising catch rates of target tuna species. They also highlight the need to consider new dynamic and adaptive management measures to more efficiently fulfill conservation and sustainability objectives for exploited resources in the EPO.
    Gestión espaciotemporal adaptativa para reducir la captura incidental de tiburones en la pesca del atún Resumen La pesca con cerco del atún tropical en el Pacífico Tropical Oriental (PTO) resulta en la captura incidental de varios grupos de especies sensibles, incluidos los elasmobranquios. La gestión eficiente del ecosistema equilibra la conservación y el uso de recursos y requiere que se consideren las compensaciones y las sinergias. Las medidas espaciales adaptativas y estacionales pueden reducir el impacto de las pesquerías sobre las especies accesorias mientras mantienen o incrementan la captura intencional. La identificación de las áreas con alto riesgo persistente en mar abierto, en donde las condiciones ambientales dinámicas causan cambios en la distribución de las especies, es esencial para explorar el impacto del cierre de las pesquerías. Usamos datos de observadores de las pesquerías recolectados entre 1995 y 2021 para explorar la persistencia espaciotemporal de las áreas con alto riesgo de captura incidental para dos especies de tiburón (Carcharhinus falciformi y C. longimanus) y con tasas bajas de captura de atún. Analizamos los datos recolectados por los observadores científicos de las pesquerías a bordo de aproximadamente 200 embarcaciones grandes de pesca con cerco que operaban en el PTO bajo diez banderas diferentes. Agregamos los datos sobre el esfuerzo de pesca, captura y la captura incidental de forma espacial y temporal en celdas de 1° x 1° y mensual, respectivamente. Cuando las áreas con gran ineficiencia pesquera se encontraban cerradas durante toda la investigación y el esfuerzo se reasignaba proporcionalmente para reflejar los patrones históricos de esfuerzo, el esfuerzo anual de captura de atún parecía incrementar en un 1‐11%, mientras que la captura incidental de las dos especies de tiburones disminuía en un 10‐19% (C. falciformi) y 9% (C. longimanus). Antes de que de redistribuyera el esfuerzo de pesca, la reducción de la captura incidental se acumuló hasta el 21‐41% (C. falciformi) y 14% (C. longimanus). Nuestros resultados son congruentes con resultados previos y demuestran el gran potencial de reducción de la captura incidental de elasmobranquios en el PTO sin poner en peligro las tasas de captura de las especies de atún. Los resultados también enfatizan la necesidad de considerar medidas adaptativas nuevas y dinámicas para cumplir de forma más eficiente los objetivos de conservación y sustentabilidad para la explotación de recursos en el PTO.
    【摘要】: 在东热带太平洋围网捕捞热带金枪鱼时会兼捕一些敏感物种群, 如板鳃亚纲物种。有效的生态系统管理需要平衡保护和资源利用, 并考虑利弊权衡和协同作用。季节性和适应性空间措施可减少渔业对非目标物种的影响, 同时保持或增加目标物种的渔获量。在开阔的海洋中, 动态环境条件驱动着物种分布的变化, 识别这些区域中持续存在的高风险区域对于探究渔场禁渔的影响至关重要。本研究利用1995年至2021年收集的渔业观测数据, 探讨了两种海洋中的鲨鱼(镰形真鲨[Carcharhinus falciformis]和长鳍真鲨[Carcharhinus longimanus])的高兼捕风险区域与金枪鱼的低渔获区域的时空持续性。我们分析了在东热带太平洋区域作业的约200艘悬挂10种不同船旗的大型围网渔船上渔业科学观察员收集的数据, 并将捕捞作业量、渔获量和兼捕数据分别按1° x 1°的单元格和月份进行空间和时间整合。如果在整个研究期间关闭捕捞效率低的渔场, 并根据历史上的捕捞作业格局按比例重新分配捕捞作业量, 则每年的金枪鱼渔获量可以增加1‐11%, 而镰形真鲨和长鳍真鲨的兼捕量可分别减少10‐19%和9%。在重新分配捕捞作业量之前, 镰形真鲨和长鳍真鲨的兼捕量分别逐步减少了21‐41%和14%。我们的结果与之前的研究结果一致, 证明了有望在不影响目标金枪鱼物种渔获量的情况下, 大大减少东热带太平洋中板鳃亚纲物种的兼捕量。这些结果还强调了考虑新的动态和适应性管理措施的必要性, 以更有效地实现东热带太平洋保护和可持续利用资源的目标。【翻译:胡怡思;审校:聂永刚】.
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  • 文章类型: Journal Article
    海洋太阳鱼是一种大型鱼类,其生态学和生物学的许多方面仍然鲜为人知。电子标签用于提供有关地中海西北部海洋太阳鱼运动的第一个信息。太阳鱼一年来一直向直布罗陀海峡移动,并在水柱中表现出实质性的运动。标记技术用于研究其行为和长期迁移动力学的潜力,并强调了评估海洋太阳鱼的释放后存活率。
    The ocean sunfish is a large fish for which many aspects of its ecology and biology are still poorly known. Electronic tagging was used to provide the first information on the movements of an ocean sunfish from the northwestern Mediterranean. The sunfish moved towards the Gibraltar strait over the year and displayed substantial movements in the water column. The potential of the tagging technique employed for studying its behavior and long-term migratory dynamics, and assessing the post-release survival of ocean sunfish is highlighted.
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  • 文章类型: Journal Article
    估计从渔业中释放的动物的生存概率可以提高对动物生物学的整体理解,并对渔业管理产生影响。保护和动物福利。活力指标是对动物状况的简单视觉测量,其响应于压力因素(例如渔业捕捞)而发生变化,并且可以进行评估以预测释放后的存活率。这些指标通常包括即时反射反应,其通常被组合成分数。活力指标是直接和非侵入性的指标,允许用户量化动物离正常动物的距离(或距离)。“健康”或基线状态,这反过来又可以与诸如生存概率之类的结果相关,给出适当的校准。在过去的十年中,有关使用活力指标预测动物释放后生存的文献迅速发展。我们确定了136篇在渔业背景下使用活力指标的论文。这些研究主要集中在海洋和淡水鱼,举几个例子用的是疱疹类和甲壳类动物.活力指标的类型多种多样,有时是类群特有的(例如,海龟的捏腿,在鲨鱼的硝化膜上喷水),最常用的指标是那些评估逃避反应或扶正反应的指标,因为这些反应受损时动物的脆弱性。通过介绍太平洋鲑鱼渔业作为案例研究,我们提出了一个使用活力指标来预测分类单元和渔业生存的框架。
    Estimating the survival probability of animals released from fisheries can improve the overall understanding of animal biology with implications for fisheries management, conservation and animal welfare. Vitality indicators are simple visual measures of animal condition that change in response to stressors (like fisheries capture) and can be assessed to predict post-release survival. These indicators typically include immediate reflex responses which are typically combined into a score. Vitality indicators are straight-forward and non-invasive metrics that allow users to quantify how close (or far) an animal is from a normal, \'healthy\' or baseline state, which in turn can be correlated with outcomes such as survival probability, given appropriate calibration. The literature on using vitality indicators to predict post-release survival of animals has grown rapidly over the past decade. We identified 136 papers that used vitality indicators in a fisheries context. These studies were primarily focused on marine and freshwater fishes, with a few examples using herptiles and crustaceans. The types of vitality indicators are diverse and sometimes taxa-specific (e.g. pinching leg of turtles, spraying water at nictitating membrane of sharks) with the most commonly used indicators being those that assess escape response or righting response given the vulnerability of animals when those reflexes are impaired. By presenting Pacific salmon fisheries as a case study, we propose a framework for using vitality indicators to predict survival across taxa and fisheries.
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  • 文章类型: Journal Article
    这项研究探讨了印度洋中部深海鱼胃肠道中微塑料(MP)的存在,在印度海岸在检查的27个物种中,19显示MP污染,平均每个人2.68±0.30(±SE)MPs。通过FTIR和显微拉曼分析确定了几种类型的聚合物,包括聚对苯二甲酸乙二醇酯(PET),聚乙烯醇(PVA),聚丙烯(PP),聚乙酸乙烯酯(PVC),聚氨酯(PU),聚四氟乙烯(PTFE),聚苯胺(PANI),聚甲基丙烯酸甲酯(PMMA),和聚醚砜(PES),PET是最普遍的(33.33%)。底栖鱼类和营养水平较高的鱼类MP摄入较高,正如整个海洋区域的比较所表明的那样。生态位划分分析表明,摄食行为是深海鱼中MP摄取的主要影响因素,而不是栖息地或营养水平。该研究提出了通过副渔获物监测,将深海鱼类用作评估整个海洋区域和深海区域微塑料污染的指标。
    This study explores microplastic (MP) presence in the gastrointestinal tracts of deep-sea fish from the Central Indian Ocean, off the Indian coast. Among the 27 species examined, 19 showed MP contamination, averaging 2.68 ± 0.30 (±SE) MPs per individual. Polymer analysis via FTIR and micro-Raman identified several types, including polyethylene terephthalate (PET), polyvinyl alcohol (PVA), polypropelene (PP), polyvinyl acetate (PVC), polyurethane (PU), polytetrafluoroethylene (PTFE), polyaniline (PANI), polymethyl methacrylate (PMMA), and polyethersulfone (PES), with PET being the most prevalent (33.33 %). MP ingestion was higher in benthopelagic fish and those at higher trophic levels, as indicated by comparisons across oceanic zones. Niche partitioning analysis suggests feeding behaviour as a primary influencer of MP ingestion in deep-sea fish rather than habitat or trophic level. The study proposes the potential use of deep-sea fish as indicators for assessing microplastic pollution across oceanic zones and deep-sea regions through bycatch monitoring.
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  • 文章类型: Journal Article
    Purse-seine fishers using drifting fish aggregating devices (dFADs), mainly built with bamboo, plastic buoys, and plastic netting, to aggregate and catch tropical tuna, deploy 46,000-65,000 dFADs per year in the Pacific Ocean. Some of the major concerns associated with this widespread fishing device are potential entanglement of sea turtles and other marine fauna in dFAD netting; marine debris and pollution; and potential ecological damage via stranding on coral reefs, beaches, and other essential habitats for marine fauna. To assess and quantify the potential connectivity (number of dFADs deployed in an area and arriving in another area) between dFAD deployment areas and important oceanic or coastal habitat of critically endangered leatherback (Dermochelys coriacea) and hawksbill (Eretmochelys imbricata) sea turtles in the Pacific Ocean, we conducted passive-drift Lagrangian experiments with simulated dFAD drift profiles and compared them with known important sea turtle areas. Up to 60% of dFADs from equatorial areas were arriving in essential sea turtle habitats. Connectivity was less when only areas where dFADs are currently deployed were used. Our simulations identified potential regions of dFAD interactions with migration and feeding habitats of the east Pacific leatherback turtle in the tropical southeastern Pacific Ocean; coastal habitats of leatherback and hawksbill in the western Pacific (e.g., archipelagic zones of Indonesia, Papua New Guinea, and Solomon Islands); and foraging habitat of leatherback in a large equatorial area south of Hawaii. Additional research is needed to estimate entanglements of sea turtles with dFADs at sea and to quantify the likely changes in connectivity and distribution of dFADs under new management measures, such as use of alternative nonentangling dFAD designs that biodegrade, or changes in deployment strategies, such as shifting locations.
    Simulación de las trayectorias de dispositivos de concentración de peces a la deriva para identificar las interacciones potenciales con las tortugas marinas en peligro de extinción Resumen Los pescadores que usan redes de cerco con dispositivos de concentración de peces a la deriva (dFADs), hechos principalmente con bambú, boyas de plástico y redes de plástico, para concentrar y capturar atún, instalan entre 46,000 y 65,000 dFADs al año en el Océano Pacífico. Algunas de las problemáticas principales asociadas con este dispositivo de pesca de uso extenso son el enredamiento potencial de tortugas marinas y otras especies marinas en las redes de los dFADs; los desechos marinos y la contaminación; y el potencial daño ecológico por el varamiento en los arrecifes de coral, playas y otros hábitats esenciales para la fauna marina. Realizamos experimentos lagrangianos de deriva pasiva con la simulación de perfiles de deriva de los dFADs y los comparamos con áreas conocidas de importancia para las tortugas marinas. Esto fue con el objetivo de evaluar y cuantificar la conectividad potencial (número de dFADs instalados en un área que llegan a otra área) entre las áreas de instalación de dFADs y los hábitats oceánicos o costeros importantes para la tortuga laúd (Dermochelys coriacea) y la tortuga de carey (Eretmochelys imbricata), ambas en peligro crítico de extinción, en el Océano Pacífico. Hasta el 60% de los dFADs de las áreas ecuatoriales llegaron a los hábitats esenciales para las tortugas marinas. La conectividad fue menor sólo cuando se usaron áreas en donde actualmente hay dFADs instalados. Nuestras simulaciones identificaron regiones potenciales de interacción entre los dFADs y los hábitats de migración y alimentación de la tortuga laúd en el sureste tropical del Océano Pacífico; los hábitats costeros de ambas especies en el Pacífico occidental (p. ej.: zonas de archipiélagos en Indonesia, Papúa Nueva Guinea y en las Islas Salomón); y en el hábitat de forrajeo de la tortuga laúd en una gran área ecuatorial al sur de Hawái. Se requiere de mayor investigación para estimar el enredamiento de las tortugas marinas con los dFADs en el mar y para cuantificar los cambios probables en la conectividad y la distribución de los dFADs bajo nuevas medidas de manejo, como el uso alternativo de diseños que eviten el enredamiento y sean biodegradables, o cambios en las estrategias de instalación, como la reubicación.
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  • 文章类型: Journal Article
    序列捕获是一种基因组技术,可以在高通量下一代测序之前选择性地富集靶序列,以产生感兴趣的特定序列。脱靶或“bycatch”数据通常从捕获实验中丢弃,但在某些情况下可以用来解决进化问题。这里,我们调查了缺失数据对各种进化分析的影响,使用来自全球害虫蛾外显子捕获实验的副渔获,棉铃虫。我们添加了来自澳大利亚各地的超过200个新样品,这些样品是通过靶向序列捕获作为副捕获获得的有丝分裂基因组的形式,并将这些组合到一个额外的更大的数据集中,在整个物种的全球分布中总共>1000个线粒体细胞色素c氧化酶亚基I(COI)序列。利用主成分判别分析和贝叶斯聚结分析,我们表明,由兼捕组装的有丝分裂基因组缺失数据高达75%,能够返回与较高覆盖率的数据集和更广泛的围绕棉铃虫的文献一致的进化推断.例如,低覆盖率序列广泛支持了两个棉铃虫亚种的划定,也为这些亚种之间的地理周转潜力提供了新的见解。然而,我们还确定了数据集覆盖率和组成对结果的关键影响.因此,低覆盖率的副渔获数据可以为种群遗传和系统动力学分析提供有价值的信息,但需要谨慎,以确保减少的信息不会引入混杂因素,例如采样偏差,驱动推理。我们鼓励更多的研究人员考虑最大限度地发挥目标序列方法的潜力,在可能的情况下,尤其是在没有以前的线粒体数据存在的情况下,通过研究进化问题,但建议在不同的基因组覆盖阈值下分层数据,以将采样效果与真正的基因组信号分开。并了解它们对进化研究的影响。
    Sequence capture is a genomic technique that selectively enriches target sequences before high throughput next-generation sequencing, to generate specific sequences of interest. Off-target or \'bycatch\' data are often discarded from capture experiments, but can be leveraged to address evolutionary questions under some circumstances. Here, we investigated the effects of missing data on a variety of evolutionary analyses using bycatch from an exon capture experiment on the global pest moth, Helicoverpa armigera. We added > 200 new samples from across Australia in the form of mitogenomes obtained as bycatch from targeted sequence capture, and combined these into an additional larger dataset to total > 1000 mitochondrial cytochrome c oxidase subunit I (COI) sequences across the species\' global distribution. Using discriminant analysis of principal components and Bayesian coalescent analyses, we showed that mitogenomes assembled from bycatch with up to 75% missing data were able to return evolutionary inferences consistent with higher coverage datasets and the broader literature surrounding H. armigera. For example, low-coverage sequences broadly supported the delineation of two H. armigera subspecies and also provided new insights into the potential for geographic turnover among these subspecies. However, we also identified key effects of dataset coverage and composition on our results. Thus, low-coverage bycatch data can offer valuable information for population genetic and phylodynamic analyses, but caution is required to ensure the reduced information does not introduce confounding factors, such as sampling biases, that drive inference. We encourage more researchers to consider maximizing the potential of the targeted sequence approach by examining evolutionary questions with their off-target bycatch where possible-especially in cases where no previous mitochondrial data exists-but recommend stratifying data at different genome coverage thresholds to separate sampling effects from genuine genomic signals, and to understand their implications for evolutionary research.
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