A DNA 'barcode blitz': rapid digitization and sequencing of a natural history collection.
A DNA 'barcode blitz': rapid digitization and sequencing of a natural history collection.
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DNA'条形码闪电战：自然历史收集的快速数字化和测序。
DOI：
10.1371/journal.pone.0068535
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
La Salle J
中科院分区：
文献类型：
--
作者：
Hebert PD;Dewaard JR;Zakharov EV;Prosser SW;Sones JE;McKeown JT;Mantle B;La Salle J
DNA条形码方案要求将每个序列记录与凭证标本相关联，该凭证标本在可能的情况下已被作者识别。自然历史收藏似乎是条形码文库构建的理想资源，但由于与DNA降解有关的担忧，它们从未见过大规模分析。本研究探讨了这一障碍的强度，进行了全面的分析蛾和蝴蝶（鳞翅目）的物种在澳大利亚国家昆虫标本馆。协议的制定，使组织样本，标本数据和图像被迅速组装。使用这些方法，一个五人团队在14周内处理了代表12，699个物种的41，650个标本。随后的分子分析耗时约6个月，反映出需要多轮PCR，因为序列恢复受到年龄、体型和收集方案的影响。尽管存在这些变量，而且样本平均年龄为30.4岁，但仍从86%的物种中获得了条形码记录。事实上，从五个或更多个个体代表的几乎所有物种中回收了一个或多个条形码兼容序列（>487 bp），即使最年轻的是50岁。通过在网络信息平台上组装标本图像，分布数据和DNA条形码序列，这项研究极大地提高了对数千种物种信息的可访问性。此外，许多标本数据在获得后几天内就可以通过计算机访问，而大多数序列结果在三个月内发布。因此，这项研究揭示了DNA条形码工作流程可以调动生物多样性数据的速度，通常提供了一个物种的第一个网络可访问信息。这些结果进一步表明，现有的收藏品可以快速开发一个全面的DNA条形码库，用于陆地生物多样性中最多样化的部分-昆虫。
DNA barcoding protocols require the linkage of each sequence record to a voucher specimen that has, whenever possible, been authoritatively identified. Natural history collections would seem an ideal resource for barcode library construction, but they have never seen large-scale analysis because of concerns linked to DNA degradation. The present study examines the strength of this barrier, carrying out a comprehensive analysis of moth and butterfly (Lepidoptera) species in the Australian National Insect Collection. Protocols were developed that enabled tissue samples, specimen data, and images to be assembled rapidly. Using these methods, a five-person team processed 41,650 specimens representing 12,699 species in 14 weeks. Subsequent molecular analysis took about six months, reflecting the need for multiple rounds of PCR as sequence recovery was impacted by age, body size, and collection protocols. Despite these variables and the fact that specimens averaged 30.4 years old, barcode records were obtained from 86% of the species. In fact, one or more barcode compliant sequences (>487 bp) were recovered from virtually all species represented by five or more individuals, even when the youngest was 50 years old. By assembling specimen images, distributional data, and DNA barcode sequences on a web-accessible informatics platform, this study has greatly advanced accessibility to information on thousands of species. Moreover, much of the specimen data became publically accessible within days of its acquisition, while most sequence results saw release within three months. As such, this study reveals the speed with which DNA barcode workflows can mobilize biodiversity data, often providing the first web-accessible information for a species. These results further suggest that existing collections can enable the rapid development of a comprehensive DNA barcode library for the most diverse compartment of terrestrial biodiversity – insects.
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DOI：
10.1111/j.1471-8286.2006.01428.x
发表时间：
2006-12-01
期刊：
MOLECULAR ECOLOGY NOTES
影响因子：
--
作者：
Ivanova, Natalia V.;Dewaard, Jeremy R.;Hebert, Paul D. N.
通讯作者：
Hebert, Paul D. N.
影响因子：
7.7
作者：
Borisenko, Alex V.;Sones, Jayme E.;Hebert, Paul D. N.
通讯作者：
Hebert, Paul D. N.
影响因子：
1.9
作者：
Dean, MD;Ballard, JWO
通讯作者：
Ballard, JWO
DOI：
10.1073/pnas.0510466103
发表时间：
2006-01-24
影响因子：
11.1
作者：
Hajibabaei, M;Janzen, DH;Hebert, PDN
通讯作者：
Hebert, PDN
影响因子：
3.3
作者：
Hebert PD;Dewaard JR;Landry JF
通讯作者：
Landry JF