RDS and Tab-Separated-Values Formats of Discover Life bee species guide and world checklist (Hymenoptera: Apoidea: Anthophila) as derived from Dorey et al. 2023 hash://sha256/56e0b3d68f221ee79d61f6da7bfdfad927d63ab86700b856d0a42a133841779c hash://md5/3bb89ee91f9b9a834e8b2725c3729cf5

To help extend the life and reach of the bee taxonomy embedded in Dorey et al. 2023, this publication includes a versioned copy of the original data as obtained on 2023-01-05 via https://open.flinders.edu.au/ndownloader/files/43331472 , as well as a tab-separated-values file as converted using an R script `rds2tsv.R` containing:

write.table(readRDS(xzfile('/dev/stdin')), sep='\t', na='', row.names=F, quote=F)

Citation

Please cite the original work as well as DiscoverLife when using this derived and re-packaged dataset: 

Dorey, J.B., Fischer, E.E., Chesshire, P.R. et al. A globally synthesised and flagged bee occurrence dataset and cleaning workflow. Sci Data 10, 747 (2023). https://doi.org/10.1038/s41597-023-02626-w

Ascher, J. S. and J. Pickering. 2022. Discover Life bee species guide and world checklist (Hymenoptera: Apoidea: Anthophila). http://www.discoverlife.org/mp/20q?guide=Apoidea_species Draft-56, 21 August, 2022

Content

filename
content id

bee-taxonomy.rds
hash://sha256/76d8bac0e8ba193afa3278108d1aed0e08d4de1497d27ff22e5aaee3195232b4

bee-taxonomy.rds
hash://md5/9cd3653a3553202eb9a3fdd684a86b6e

bee-taxonomy.tsv
hash://sha256/b512043ddf994537ae1ed8068e44bf3a5cb9ab5e44ddf257cc82e67fe034e0e6

bee-taxonomy.tsv
hash://md5/ef136f270301830126deb3ced4da2383

Content Sample

Below are the first 10 rows of bee-taxonomy.tsv tab-delimited file output that can be downloaded below. The majority of the rows are derived from the Discover Life bee species guide and world checklist (Hymenoptera: Apoidea: Anthophila) (Asscher & Pickering 2022). Rows in the file include scientific name, taxonomic status, and higher taxonomy including subgenus. 

flags
taxonomic_status
source
accid
id
kingdom
phylum
class
order
family
subfamily
tribe
subtribe
validName
canonical
canonical_withFlags
genus
subgenus
species
infraspecies
authorship
taxon_rank
valid
notes

accepted
DiscoverLife
0
4
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Calliopsini

Acamptopoeum argentinum (Friese, 1906)
Acamptopoeum argentinum
Acamptopoeum argentinum
Acamptopoeum

argentinum

(Friese, 1906)
Species
TRUE

synonym
DiscoverLife
4
5
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Panurgini
Perditina
Perdita argentina Friese, 1906
Perdita argentina
Perdita argentina
Perdita

argentina

Friese, 1906
Species
FALSE

accepted
DiscoverLife
0
6
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Calliopsini

Acamptopoeum calchaqui Compagnucci, 2004
Acamptopoeum calchaqui
Acamptopoeum calchaqui
Acamptopoeum

calchaqui

Compagnucci, 2004
Species
TRUE

accepted
DiscoverLife
0
7
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Calliopsini

Acamptopoeum colombiense Shinn, 1965
Acamptopoeum colombiense
Acamptopoeum colombiense
Acamptopoeum

colombiense

Shinn, 1965
Species
TRUE

synonym
DiscoverLife
7
8
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Calliopsini

Acamptopoeum colombiensis_sic Shinn, 1965
Acamptopoeum colombiensis
Acamptopoeum colombiensis_sic
Acamptopoeum

colombiensis

Shinn, 1965
Species
FALSE
species _sic

accepted
DiscoverLife
0
9
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Calliopsini

Acamptopoeum fernandezi Gonzalez, 2004
Acamptopoeum fernandezi
Acamptopoeum fernandezi
Acamptopoeum

fernandezi

Gonzalez, 2004
Species
TRUE

accepted
DiscoverLife
0
10
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Calliopsini

Acamptopoeum inauratum (Cockerell, 1926)
Acamptopoeum inauratum
Acamptopoeum inauratum
Acamptopoeum

inauratum

(Cockerell, 1926)
Species
TRUE

synonym
DiscoverLife
10
11
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Panurgini
Camptopoeina
Camptopoeum (Acamptopoeum) inauratum Cockerell, 1926
Camptopoeum (Acamptopoeum) inauratum
Camptopoeum (Acamptopoeum) inauratum
Camptopoeum
Acamptopoeum
inauratum

Cockerell, 1926
Species
FALSE

accepted
DiscoverLife
0
12
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Calliopsini

Acamptopoeum melanogaster Compagnucci, 2004
Acamptopoeum melanogaster
Acamptopoeum melanogaster
Acamptopoeum

melanogaster

Compagnucci, 2004
Species
TRUE

accepted
DiscoverLife
0
13
Animalia
Arthropoda
Insecta
Hymenoptera
Andrenidae
Panurginae
Calliopsini

Acamptopoeum nigritarse (Vachal, 1909)
Acamptopoeum nigritarse
Acamptopoeum nigritarse
Acamptopoeum

nigritarse

(Vachal, 1909)
Species
TRUE

Please also credit the original dataset Dorey et al. 2023 when using this derived product.

Provenance

The versioned workflow was captured by Preston (Elliot et al. 2020, 2023) with identifier hash://sha256/56e0b3d68f221ee79d61f6da7bfdfad927d63ab86700b856d0a42a133841779c and history 

preston ls --anchor hash://sha256/56e0b3d68f221ee79d61f6da7bfdfad927d63ab86700b856d0a42a133841779c

.
.
"Preston is a software program that finds, archives and provides access to biodiversity datasets."@en .
.
"An activity that assigns an alias to a content hash"@en .
"2024-01-06T00:02:37.973Z"^^ .
.
.
.
"Jorrit Poelen, Icaro Alzuru, & Michael Elliott. 2021. Preston: a biodiversity dataset tracker (Version 0.7.15) [Software]. Zenodo. https://doi.org/10.5281/zenodo.1410543"@en .
.
"A biodiversity dataset graph archive."@en .
.
.
.
.
"Preston is a software program that finds, archives and provides access to biodiversity datasets."@en .
.
"Executes script and captures stdout"@en .
"2024-01-06T00:00:09.427Z"^^ .
.
.
.
"Jorrit Poelen, Icaro Alzuru, & Michael Elliott. 2021. Preston: a biodiversity dataset tracker (Version 0.7.15) [Software]. Zenodo. https://doi.org/10.5281/zenodo.1410543"@en .
.
"A biodiversity dataset graph archive."@en .
.
"text/x-shellscript" .
.
.
.
.
"2024-01-06T00:00:10.433Z"^^ .
.
.
.
.
.
"Preston is a software program that finds, archives and provides access to biodiversity datasets."@en .
.
"A crawl event that discovers biodiversity archives."@en .
"2024-01-05T23:59:20.045Z"^^ .
.
.
.
"Jorrit Poelen, Icaro Alzuru, & Michael Elliott. 2021. Preston: a biodiversity dataset tracker (Version 0.7.15) [Software]. Zenodo. https://doi.org/10.5281/zenodo.1410543"@en .
.
"A biodiversity dataset graph archive."@en .
.
.
.
"2024-01-05T23:59:20.108Z"^^ .
.
.
.
.
.
.
"Preston is a software program that finds, archives and provides access to biodiversity datasets."@en .
.
"A crawl event that discovers biodiversity archives."@en .
"2024-01-05T23:53:59.748Z"^^ .
.
.
.
"Jorrit Poelen, Icaro Alzuru, & Michael Elliott. 2021. Preston: a biodiversity dataset tracker (Version 0.7.15) [Software]. Zenodo. https://doi.org/10.5281/zenodo.1410543"@en .
.
"A biodiversity dataset graph archive."@en .

为延长Dorey等人2023年研究中嵌入的蜂类分类体系的存续周期与传播范围，本出版物收录了2023年1月5日通过https://open.flinders.edu.au/ndownloader/files/43331472 获取的原始数据带版本控制的副本，以及通过R脚本`rds2tsv.R`转换得到的制表符分隔值（Tab-Separated Values, TSV）文件，其转换代码为：

write.table(readRDS(xzfile('/dev/stdin')), sep=' ', na='', row.names=F, quote=F)

### 引用说明
使用本衍生二次封装数据集时，请同时引用原始研究与DiscoverLife：

Dorey, J.B., Fischer, E.E., Chesshire, P.R. et al. A globally synthesised and flagged bee occurrence dataset and cleaning workflow. Sci Data 10, 747 (2023). https://doi.org/10.1038/s41597-023-02626-w

Ascher, J. S. 和 J. Pickering. 2022. Discover Life bee species guide and world checklist (Hymenoptera: Apoidea: Anthophila). http://www.discoverlife.org/mp/20q?guide=Apoidea_species Draft-56, 21 August, 2022

### 内容

| 文件名 | 内容标识符 |
| --- | --- |
| bee-taxonomy.rds | hash://sha256/76d8bac0e8ba193afa3278108d1aed0e08d4de1497d27ff22e5aaee3195232b4 |
| bee-taxonomy.rds | hash://md5/9cd3653a3553202eb9a3fdd684a86b6e |
| bee-taxonomy.tsv | hash://sha256/b512043ddf994537ae1ed8068e44bf3a5cb9ab5e44ddf257cc82e67fe034e0e6 |
| bee-taxonomy.tsv | hash://md5/ef136f270301830126deb3ced4da2383 |

### 内容样本
以下为可从下方下载的`bee-taxonomy.tsv`制表符分隔文件的前10行样本。该数据集绝大多数条目源自DiscoverLife蜂类物种指南与全球名录（膜翅目Hymenoptera：蜜蜂总科Apoidea：蜜蜂下目Anthophila）（Ascher & Pickering, 2022）。文件内的条目包含学名、分类学状态以及包含亚属在内的高阶分类学信息。

字段说明如下：
| 中文译名 | 英文原名 |
| --- | --- |
| 标记 | flags |
| 分类学状态 | taxonomic_status |
| 数据来源 | source |
| 接受名标识符 | accid |
| 条目ID | id |
| 界 | kingdom |
| 门 | phylum |
| 纲 | class |
| 目 | order |
| 科 | family |
| 亚科 | subfamily |
| 族 | tribe |
| 亚族 | subtribe |
| 有效学名 | validName |
| 标准学名 | canonical |
| 带标记的标准学名 | canonical_withFlags |
| 属 | genus |
| 亚属 | subgenus |
| 种 | species |
| 种下分类单元 | infraspecies |
| 命名者 | authorship |
| 分类单元等级 | taxon_rank |
| 是否有效 | valid |
| 备注 | notes |

以下为前10行样本内容：

| 标记 | 分类学状态 | 数据来源 | 接受名标识符 | 条目ID | 界 | 门 | 纲 | 目 | 科 | 亚科 | 族 | 亚族 | 有效学名 | 标准学名 | 带标记的标准学名 | 属 | 亚属 | 种 | 种下分类单元 | 命名者 | 分类单元等级 | 是否有效 | 备注 |
| --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- | --- |
| | accepted | DiscoverLife | 0 | 4 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Calliopsini | | Acamptopoeum argentinum (Friese, 1906) | Acamptopoeum argentinum | Acamptopoeum argentinum | Acamptopoeum | | argentinum | | (Friese, 1906) | Species | TRUE | |
| | synonym | DiscoverLife | 4 | 5 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Panurgini | Perditina | Perdita argentina Friese, 1906 | Perdita argentina | Perdita argentina | Perdita | | argentina | | Friese, 1906 | Species | FALSE | |
| | accepted | DiscoverLife | 0 | 6 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Calliopsini | | Acamptopoeum calchaqui Compagnucci, 2004 | Acamptopoeum calchaqui | Acamptopoeum calchaqui | Acamptopoeum | | calchaqui | | Compagnucci, 2004 | Species | TRUE | |
| | accepted | DiscoverLife | 0 | 7 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Calliopsini | | Acamptopoeum colombiense Shinn, 1965 | Acamptopoeum colombiense | Acamptopoeum colombiense | Acamptopoeum | | colombiense | | Shinn, 1965 | Species | TRUE | |
| | synonym | DiscoverLife |7 |8 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Calliopsini | | Acamptopoeum colombiensis_sic Shinn, 1965 | Acamptopoeum colombiensis | Acamptopoeum colombiensis_sic | Acamptopoeum | | colombiensis | | Shinn, 1965 | Species | FALSE | species _sic |
| | accepted | DiscoverLife |0 |9 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Calliopsini | | Acamptopoeum fernandezi Gonzalez, 2004 | Acamptopoeum fernandezi | Acamptopoeum fernandezi | Acamptopoeum | | fernandezi | | Gonzalez, 2004 | Species | TRUE | |
| | accepted | DiscoverLife |0 |10 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Calliopsini | | Acamptopoeum inauratum (Cockerell, 1926) | Acamptopoeum inauratum | Acamptopoeum inauratum | Acamptopoeum | | inauratum | | (Cockerell, 1926) | Species | TRUE | |
| | synonym | DiscoverLife |10 |11 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Panurgini | Camptopoeina | Camptopoeum (Acamptopoeum) inauratum Cockerell, 1926 | Camptopoeum (Acamptopoeum) inauratum | Camptopoeum (Acamptopoeum) inauratum | Camptopoeum | Acamptopoeum | inauratum | | Cockerell, 1926 | Species | FALSE | |
| | accepted | DiscoverLife |0 |12 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Calliopsini | | Acamptopoeum melanogaster Compagnucci, 2004 | Acamptopoeum melanogaster | Acamptopoeum melanogaster | Acamptopoeum | | melanogaster | | Compagnucci, 2004 | Species | TRUE | |
| | accepted | DiscoverLife |0 |13 | Animalia | Arthropoda | Insecta | Hymenoptera | Andrenidae | Panurginae | Calliopsini | | Acamptopoeum nigritarse (Vachal, 1909) | Acamptopoeum nigritarse | Acamptopoeum nigritarse | Acamptopoeum | | nigritarse | | (Vachal, 1909) | Species | TRUE | |

使用本衍生数据集时，请同时致谢原始数据集Dorey等人2023年的研究。

### 来源溯源
本带版本控制的工作流由Preston（Elliot等人, 2020, 2023）捕获，其标识符为`hash://sha256/56e0b3d68f221ee79d61f6da7bfdfad927d63ab86700b856d0a42a133841779c`，对应的历史查询命令为：

preston ls --anchor hash://sha256/56e0b3d68f221ee79d61f6da7bfdfad927d63ab86700b856d0a42a133841779c

Preston是一款用于发现、归档并提供生物多样性数据集访问途径的软件工具，相关引用如下：
> Jorrit Poelen, Icaro Alzuru, & Michael Elliott. 2021. Preston: a biodiversity dataset tracker (Version 0.7.15) [Software]. Zenodo. https://doi.org/10.5281/zenodo.1410543

其他相关描述包括：
- 为内容哈希分配别名的操作
- 执行脚本并捕获标准输出
- 发现生物多样性归档的爬取事件
- 生物多样性数据集图谱归档