生物声学数据档案的管理标准及管理技术进展

doi:10.17520/biods.2024266

生物多样性 ›› 2024, Vol. 32 ›› Issue (10): 24266. DOI: 10.17520/biods.2024266 cstr: 32101.14.biods.2024266

生物声学数据档案的管理标准及管理技术进展

何凯莹¹(), 徐心慧²^,^*(), 张承云¹(), 郝泽周³, 肖治术⁴(), 郭莹莹⁵

1.广州大学电子与通信工程学院, 广州 510006
2.广东生态工程职业学院, 广州 510520
3.中国林业科学研究院热带林业研究所, 广州 510520
4.中国科学院动物研究所农业虫害鼠害综合治理研究国家重点实验室, 北京 100101
5.广州大学机械与电气工程学院, 广州 510006

收稿日期:2024-06-28 接受日期:2024-10-18 出版日期:2024-10-20 发布日期:2024-12-03
通讯作者: *E-mail: xinhuixu9335@foxmail.com
基金资助:
广东省普通高校创新团队项目(2024KCXTD078);中国林业科学研究院基本科研业务费专项资助(CAFYBB2023MA016);国家自然科学基金(32201338);国家自然科学基金(32171520);国家自然科学基金(52405584)

Bioacoustics data archives management standards and management technology progress

Kaiying He¹(), Xinhui Xu²^,^*(), Chengyun Zhang¹(), Zezhou Hao³, Zhishu Xiao⁴(), Yingying Guo⁵

1. School of Electronics and Communication Engineering, Guangzhou University, Guangzhou 510006, China
2. Guangdong Eco-Engineering Polytechnic, Guangzhou 510520, China
3. Research Institute of Tropical Forestry, Chinese Academy of Forestry, Guangzhou 510520, China
4. State Key Laboratory of Integrated Management of Pest Insects and Rodents in Agriculture, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
5. School of Mechanical and Electrical Engineering, Guangzhou University, Guangzhou 510006, China

Received:2024-06-28 Accepted:2024-10-18 Online:2024-10-20 Published:2024-12-03
Contact: *E-mail: xinhuixu9335@foxmail.com
Supported by:
Guangdong Innovation Team for the Higher-educational Institution(2024KCXTD078);Fundamental Research Funds of Chinese Academy of Forestry(CAFYBB2023MA016);National Natural Science Foundation of China(32201338);National Natural Science Foundation of China(32171520);National Natural Science Foundation of China(52405584)

摘要/Abstract

摘要：

生物声学数据档案是记录和保存生物声学数据信息的重要载体, 建立统一的管理标准和规范, 能够确保数据的质量、共享和长期保存, 促进生物声学数据的整合与应用, 为生物多样性的监测和评估提供基础数据支持, 对于生物多样性研究和生态保护具有重要意义。随着录音数据采集、存储、分析和共享技术的发展及应用, 生物声学数据档案的管理和存储有望在数据自动化标注、高效压缩存储、智能化检索和实时共享等方面实现较大的突破和变革。本文结合近年来生物声学监测、评估历史基准线等需求, 系统地阐述了生物声学数据档案的特征和管理标准, 介绍了相关录音存储技术的最新进展, 探讨了生物声学数据档案管理在实际应用中的价值和挑战, 并对国内外生物声学数据库和数据共享平台的建设情况进行了展望。

关键词: 生物声学监测, 数据档案管理, 元数据标准, 数据库建设, 数据共享平台

Abstract

Background & Aims: In recent years, bioacoustics monitoring has emerged as a crucial tool for biodiversity conservation, enabling a continuous, real-time, and non-invasive means to gather data on various species and their habitats. This method provides superior efficiency and coverage compared to traditional field surveys and observations. However, the vast amount of diverse bioacoustics data generated presents significant challenges in terms of storage, management, and analysis. This review aims to systematically outline the characteristics and management standards of bioacoustics data archives. It highlights the latest advancements in recording and storage technologies and explores the value and challenges of bioacoustics data archiving in practical applications. Additionally, this review also provides an overview of the current state of bioacoustics databases and data-sharing platforms, both domestically and internationally.

Progress: Bioacoustics data archives are systematic repositories dedicated to the preservation and management of bioacoustics data. These archives include raw audio recordings, metadata detailing recording times, locations, and equipment specifications, and processed data derived from species identification and classification tools. These archives are essential for biodiversity conservation efforts, as they store crucial data on species’ vocalizations, behaviors, and interactions. Standardized management protocols are essential for ensuring data integrity, accessibility, and usability. Recent technological advances have facilitated better data collection, processing, and storage methods, making bioacoustics monitoring more scalable and sophisticated.

Conclusion: The development and implementation of advanced bioacoustics data management and archiving systems are pivotal for effective biodiversity monitoring and conservation. By leveraging the latest technological advancements, bioacoustics data archives can significantly enhance automated data annotation, storage efficiency, intelligent retrieval, and real-time sharing capabilities. These improvements will help meet the increasing demands of bioacoustics monitoring, evaluation, and historical baseline establishment, thereby significantly supporting biodiversity conservation efforts.

Key words: bioacoustics monitoring, data archive management, metadata standards, database construction, data sharing platform

何凯莹, 徐心慧, 张承云, 郝泽周, 肖治术, 郭莹莹 (2024) 生物声学数据档案的管理标准及管理技术进展. 生物多样性, 32, 24266. DOI: 10.17520/biods.2024266.

Kaiying He, Xinhui Xu, Chengyun Zhang, Zezhou Hao, Zhishu Xiao, Yingying Guo (2024) Bioacoustics data archives management standards and management technology progress. Biodiversity Science, 32, 24266. DOI: 10.17520/biods.2024266.

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链接本文: https://www.biodiversity-science.net/CN/10.17520/biods.2024266

https://www.biodiversity-science.net/CN/Y2024/V32/I10/24266

图/表 6

参考文献 31

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数据特征 Data characteristics	特征描述 Feature description	管理现状及挑战 Management status and challenges	文献来源 Reference
数据来源 Data source	野外自动录音设备、现有的生物声学图书馆、实验室处理后录音 Field automatic recording equipment, existing bioacoustics libraries, post-processing recording in laboratories	数据来源多样, 格式和质量差异较大 Data sources are diverse and vary widely in format and quality	Brown et al, 2020
数据类型 Data type	原始录音数据、处理后的录音文件、录音元数据、频谱和注释数据 Original recording data, processed recording files, recording metadata, spectrum data, annotation data	类型多样, 存储需求和管理要求不同 Various types, different storage requirements and management requirements	杨铭伦等, 2021
数据量 Data volume	小型项目: 几十GB到数百GB/月 Small projects: Tens of GB to hundreds of GB/month 大型项目: 数百TB/月 Large projects: Hundreds of TB/month	数据量庞大, 传统存储和管理方式难以应对 The amount of data is huge, and traditional storage and management methods are not suitable	杨铭伦等, 2021
元数据标准 Metadata standard	录音时间、地理位置、录音设备、录音参数、物种识别和分类信息 Recording time, geographical location, recording equipment, recording parameters, species identification, and taxonomic information	元数据标准不统一, 数据整合和共享困难 Metadata standards are not uniform, and data integration and sharing are difficult	Roch et al, 2016
数据共享 Data sharing	录音文件格式、元数据标准、数据隐私保护 Recording file format, metadata standards, data privacy protection	共享机制、隐私保护机制和管理标准需进一步完善, 提高数据可访问性和可利用性 Improve sharing mechanisms, privacy protection mechanisms, and management standards to improve data accessibility and availability	Parsons et al, 2022

数据特征 Data characteristics	特征描述 Feature description	管理现状及挑战 Management status and challenges	文献来源 Reference
数据来源 Data source	野外自动录音设备、现有的生物声学图书馆、实验室处理后录音 Field automatic recording equipment, existing bioacoustics libraries, post-processing recording in laboratories	数据来源多样, 格式和质量差异较大 Data sources are diverse and vary widely in format and quality	Brown et al, 2020
数据类型 Data type	原始录音数据、处理后的录音文件、录音元数据、频谱和注释数据 Original recording data, processed recording files, recording metadata, spectrum data, annotation data	类型多样, 存储需求和管理要求不同 Various types, different storage requirements and management requirements	杨铭伦等, 2021
数据量 Data volume	小型项目: 几十GB到数百GB/月 Small projects: Tens of GB to hundreds of GB/month 大型项目: 数百TB/月 Large projects: Hundreds of TB/month	数据量庞大, 传统存储和管理方式难以应对 The amount of data is huge, and traditional storage and management methods are not suitable	杨铭伦等, 2021
元数据标准 Metadata standard	录音时间、地理位置、录音设备、录音参数、物种识别和分类信息 Recording time, geographical location, recording equipment, recording parameters, species identification, and taxonomic information	元数据标准不统一, 数据整合和共享困难 Metadata standards are not uniform, and data integration and sharing are difficult	Roch et al, 2016
数据共享 Data sharing	录音文件格式、元数据标准、数据隐私保护 Recording file format, metadata standards, data privacy protection	共享机制、隐私保护机制和管理标准需进一步完善, 提高数据可访问性和可利用性 Improve sharing mechanisms, privacy protection mechanisms, and management standards to improve data accessibility and availability	Parsons et al, 2022

标准术语 Standard term	定义 Definition	示例 Example	含义 Implication
dwc: eventDate	录音时间, 可以精确到秒 Recording time, down to the second	2009-02-20T08:40Z	2009年2月20日上午8:40 UTC (世界标准时间) February 20, 2009 8:40 am UTC (Coordinated Universal Time)
	录音时间, 可以精确到秒 Recording time, down to the second	1963-03-08T14:07-0600	1963年3月8日下午2:07, 时区比UTC早6小时 March 8, 1963, 2:07 PM, time zone 6 hours ahead of UTC
		2007-03-01T13:00:00Z/ 2008-05-11T15:30:00Z	在2007年3月1日下午1:00 UTC和2008年5月11日下午3:30 UTC之间的某个时间间隔内 Sometime between 1:00 pm UTC on March 1, 2007 and 3:30 pm UTC on May 11, 2008
dwc: decimalLatitude	十进制纬度, 精确到小数点后几位Decimal latitude, accurate to a few decimal places	-41.0983423	南纬41.0983423° 41.0983423 degrees South 正值位于赤道以北, 负值位于赤道以南 Positive values are located north of the equator, negative values are located south of the equator
dwc: decimalLongitude	十进制经度, 精确到小数点后几位 Decimal longitude, accurate to a few decimal places	-121.1761111	西经121.1761111° 121.1761111 degrees West 正值位于格林威治子午线以东, 负值位于格林威治子午线以西 Positive values are located east of the Greenwich Meridian, Negative values are located west of the Greenwich Meridian
dwc: verbatimLocality	录音的具体地点描述 Description of the exact location of the recording	25 km NNE Bariloche por R. Nac. 237	录音地点的原始文字描述 Original text description of the recording location
dwc: scientificName	录音中物种的学名, 使用拉丁名称 Scientific names of species in recordings, using Latin names	Ctenomys sociabilis	属名 + 特定修饰语 Genus name + specific epithet 栉鼠属(Ctenomys)
		Roptrocerus typographi (Györfi, 1952)	属名 + 特定修饰语+科学名称作者身份 Genus name + specific epithet + scientific name authorship
dwc: recordedBy	录音的记录者 The recorder of recording	José E. Crespo	可以是一个人或一个组织 It can be a person or an organization
dwc: samplingProtocol	录音的采样方法或设备描述 Description of the sampling method or device for recording	SM4 acoustic recorder	录音设备或采样方法的名称 The name of the recording device or sampling method
dwc: associatedMedia	录音文件的URL URL of the recording file	https://arctos.database.museum/media/10520962	确保录音文件可以通过网络访问, 将录音文件和元数据关联起来 Make sure audio files are accessible over the network, associate audio files with metadata

标准术语 Standard term	定义 Definition	示例 Example	含义 Implication
dwc: eventDate	录音时间, 可以精确到秒 Recording time, down to the second	2009-02-20T08:40Z	2009年2月20日上午8:40 UTC (世界标准时间) February 20, 2009 8:40 am UTC (Coordinated Universal Time)
	录音时间, 可以精确到秒 Recording time, down to the second	1963-03-08T14:07-0600	1963年3月8日下午2:07, 时区比UTC早6小时 March 8, 1963, 2:07 PM, time zone 6 hours ahead of UTC
		2007-03-01T13:00:00Z/ 2008-05-11T15:30:00Z	在2007年3月1日下午1:00 UTC和2008年5月11日下午3:30 UTC之间的某个时间间隔内 Sometime between 1:00 pm UTC on March 1, 2007 and 3:30 pm UTC on May 11, 2008
dwc: decimalLatitude	十进制纬度, 精确到小数点后几位Decimal latitude, accurate to a few decimal places	-41.0983423	南纬41.0983423° 41.0983423 degrees South 正值位于赤道以北, 负值位于赤道以南 Positive values are located north of the equator, negative values are located south of the equator
dwc: decimalLongitude	十进制经度, 精确到小数点后几位 Decimal longitude, accurate to a few decimal places	-121.1761111	西经121.1761111° 121.1761111 degrees West 正值位于格林威治子午线以东, 负值位于格林威治子午线以西 Positive values are located east of the Greenwich Meridian, Negative values are located west of the Greenwich Meridian
dwc: verbatimLocality	录音的具体地点描述 Description of the exact location of the recording	25 km NNE Bariloche por R. Nac. 237	录音地点的原始文字描述 Original text description of the recording location
dwc: scientificName	录音中物种的学名, 使用拉丁名称 Scientific names of species in recordings, using Latin names	Ctenomys sociabilis	属名 + 特定修饰语 Genus name + specific epithet 栉鼠属(Ctenomys)
		Roptrocerus typographi (Györfi, 1952)	属名 + 特定修饰语+科学名称作者身份 Genus name + specific epithet + scientific name authorship
dwc: recordedBy	录音的记录者 The recorder of recording	José E. Crespo	可以是一个人或一个组织 It can be a person or an organization
dwc: samplingProtocol	录音的采样方法或设备描述 Description of the sampling method or device for recording	SM4 acoustic recorder	录音设备或采样方法的名称 The name of the recording device or sampling method
dwc: associatedMedia	录音文件的URL URL of the recording file	https://arctos.database.museum/media/10520962	确保录音文件可以通过网络访问, 将录音文件和元数据关联起来 Make sure audio files are accessible over the network, associate audio files with metadata

标准术语 Standard term	定义 Definition	示例 Example
ac: accessURI	指向音频文件的URL The URL to the audio file	https://xeno-canto.org/sounds/uploaded/PRVFBYIQYZ/XC932891-sonus-naturalis-7-01-06-2024.mp3
ac: derivedFrom	对原始资源的引用, 当前资源是从中派生的 A reference to the original resource from which the current resource is derived	例如一个经过降噪处理的录音可以标注原始录音的URL或ID For example, the URL or ID of the original recording can be marked after noise reduction
dc: format	音视频文件格式 Audio and video file format	audio/wav, audio/mp3
ac: mediaDuration	音频或视频文件的时长, 使用ISO 8601时间表示法 The duration of an audio or video file, using the ISO 8601 time notation	PT3M45S (3分45秒) Three minutes and 45 seconds
ac: endTimestamp	结束时间戳, 使用ISO 8601时间表示法, UTC时区 End time stamp, using ISO 8601 time notation, UTC time zone	可以应用于感兴趣的区域或整个文件 It can be applied to the area of interest or the entire document
mo: sample_rate	音频的采样率 Sample rate of audio	以Hz为单位的数值 Values expressed in Hz

生物声学数据档案的管理标准及管理技术进展

Bioacoustics data archives management standards and management technology progress

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数据库 Database	链接 Link	具体内容 Specific content
xeno-canto	https://xeno-canto.org/	分享世界各地野生动物声音的在线存储库 An online repository for sharing wildlife sounds from all over the world
BioAcoustica	https://bio.acousti.ca/	在线存储库和分析平台, 用于科学记录野生动物的声音 Online repository and analysis platform for the scientific recording of wildlife sounds
ChiroVox	https://www.chirovox.org/	蝙蝠叫声的公共图书馆 The public library of bat calls
Arbimon	https://arbimon.org/	免费存储以换取共享数据的在线存储库 Online repository for free storage in exchange for shared data
Audio Gallery (Discovery of Sound in the Sea)	https://dosits.org/galleries/audio-gallery/	来自世界各地44种海洋哺乳动物、29种鱼类和4种无脊椎动物的声音样本 Sound samples of 44 marine mammals, 29 fish and 4 invertebrate species from all over the world
Fish Sounds (Uniersity of Rhode lsland)	http://www.gso.uri.edu/fishsounds/	来自北大西洋西部153种鱼类的155个声音样本 155 sound samples of 153 fish species from the Western North Atlantic
The SOUND Table (FishBase)	https://www.fishbase.de/topic/List.php?group=sounds	90种鱼类的121个声音样本, 大部分来自北大西洋西部 121 sound samples of 90 fish species, mostly from the Western North Atlantic
Macaulay Library (Cornel University)	https://www.macaulaylibrary.org/	大量鸟类和非鸟类的声音样本 Large sample of bird and non-bird sounds
Marine Mammals of Australia and Antarctica (Curtin University)	http://cmst.curtin.edu.au/research/marinemammal-bioacoustics/	澳洲43种海洋哺乳动物的声音样本 Sound samples of 43 marine mammal species from Australasia
Ocean Networks Canada (Sound Cloud)	https://soundcloud.com/oceannetworkscanada/albums	多个来自加拿大的海洋哺乳动物和鱼类的声音样本 Multiple sound samples of marine mammals and fish from Canada
Watkins Marine Mammal Sound Database (Woods Hole Oceanographic Institution)	https://cis.whoi.edu/science/B/whalesounds/index.cfm	55种海洋哺乳动物的大约15,000个声音样本, 以及大约1,600个完整的录音About 15,000 sound samples of 55 marine mammal species, as well as about 1,600 full soundscape recordings
British Library Sound Archive (The British Library)	https://sounds.bl.uk/Environment	来自世界各地的1万种鸟类、哺乳动物、两栖动物、爬行动物、鱼类和无脊椎动物的24万个声音样本 240,000 sound samples of 10,000 bird, mammal, amphibian, reptile, fish, and invertebrate species from all over the world
Voices in the Sea (University of California San Diego)	http://voicesinthesea.ucsd.edu/	33种鲸目动物和10种鳍足类动物的声音样本 Sound samples from 33 cetaceans and 10 pinnipeds
FishSounds (MERIDIAN)	https://www.fishsounds.net	130种鱼类的240个声音样本 240 sound samples of 130 fish species
Animal Sound Archive (Museum für Naturkundein Berlin)	https://www.tierstimmenarchiv.de/	12万份野生动物的声音样本, 包括无脊椎动物、海洋哺乳动物和鱼类 120,000 sound samples of any wildlife, including invertebrates, marine mammals, and fishes
FonoZoo (Museo Nacional de CienciasNaturales Madrid)	http://www.fonozoo.com/	包括无脊椎动物、海洋哺乳动物、两栖动物和鱼类在内的1,620个物种的11,656个声音样本 11,656 sound samples of 1,620 species, including invertebrates marine mammals, amphibians, and fishes
Sonothèque (Muséum National d'Histoire Naturelle)	https://sonotheque.mnhn.fr/	多个野生动物物种的19,589个声音样本, 包括鸟类、青蛙、鱼类和昆虫等 19,589 sound samples of wildlife species, including birds, frogs, fishes, and insects
ForgID	https://www.frogid.net.au/	一个澳大利亚蛙声数据库 An Australian frog sound database