(一)专著
陈小勇,2000. 物种和种群的保护. 见 Primack、季维智主编,保护生物学基础. 北京:中国林业出版社:94-145.
陈小勇. 2010. 第十二章云南的湿地脊椎动物 第二节湿地鱼类. 见: 杨岚,李恒,杨晓君 编著. 云南湿地. 北京:中国林业出版社: 479-521
陈小勇, 潘晓赋, 杨君兴. 2010. 第13章 鱼类. 王娟,杜凡,杨宇明等. 中国云南澜沧江自然保护区科学考察研究. 科学出版社:373-407
陈小勇, 杜丽娜, 江艳娥, 杨君兴. 2012. 第十章 鱼类. 吴霞,施永宏 主编. 驮娘江自然保护区. 云南民族出版社:183-208.
陈小勇,王剑伟,杨剑,高欣. 2013. 徐海根,孙红英,陈小勇,曹铭昌,崔鹏,房丽君 主编. 生物物种资源监测概论. 科学出版社. 304pp.
陈小勇,陈枳颖,秦涛. 鱼类. 见:孙航,高正文. 主编. 2017.10. 云南省生物物种名录 2016版. 云南科技出版社:511-530.
黄艺,曹晓峰,陈小勇 等著. 2018. 滇池流域水生态系统状态与健康评价. 科学出版社
(二)论文
1. Du Li-Na, Hou Mian, Chen Xiao-Yong*, Yang Jun-Xing*. 2018. A new species of Yunnanilus (Cypriniformes: Nemacheilidae) from Sichuan, southwest China. Zootaxa 4532 (1): 137–144
2. Qiu Ren, Jun-Xing Yang*, Xiao-Yong Chen*. 2018. Phylogeographical and Morphological Analyses of Triplophysa stenura (Cypriniformes: Nemacheilidae) from the Three Parallel Rivers Region, China. Zoological Studies, 57: 26.
3. Zheng, L.-P., Qin, T., Chen, X.-Y*. 2018. Altigena malihkaia, a new species of Labeonini (Teleostei: Cyprinidae) from the Irrawaddy River basin in Myanmar. Zootaxa, 4476(1): 087–093.
4. Shu S-S, Rogers CD, Chen X-Y*, Sanoamuang L*. 2018. Streptocephalus diversity in Myanmar, with description of a new species (Branchiopoda, Anostraca). ZooKeys 734: 1–12
5. Xiao-Yong Chen*, William J. Poly, David Catania, Wan-Sheng Jiang. 2017. A new species of sisorid catfish of the genus Exostoma from the Salween drainage, Yunnan, China. Zoological Research 38(5): 291-299
6. Tao Qin, Zhi-Ying Chen, Lu-Lu Xu, Paing Zaw, Yunn Mi Mi Kyaw, Kyaw Win Maung, Xiao-Yong Chen*. 2017. Five newly recorded Cyprinid fish (Teleostei: Cypriniformes) in Myanmar. Zoological Research 38(5): 300-309
7. Xiao-Yong Chen*, Tao Qin, Zhi-Ying Chen. 2017. Oreoglanis hponkanensis, a new sisorid catfish from north Myanmar (Actinopterygii, Sisoridae). Zookeys 646: 95-108
8. Shusen Shu, La-Orsri Sanoamuang*, Xiaoyong Chen*. 2017. Mesocyclops putaoensis n. sp., a new species of freshwater copepod (Copepoda, Cyclopidae) from Northern Myanmar (Copepoda, Cyclopidae). Crustaceana 4290 (1): 192–200
9. Shusen Shu, Feizhou Chen, Anton Brancelj, Junxing Yang, Xiaoyong Chen*. 2017. Karstodiaptomus sheni n. gen., n. sp., a new freshwater stygobiotic calanoid (Crustacea: Copepoda: Calanoida) and the first record of Speodiaptominae from Yunnan, China. Zootaxa 4290(1): 192–200
10. Liu SW, XF Pan, JX Yang*, XY Chen*. 2017. A new cave-dwelling loach, Triplophysa xichouensis sp. nov., (Teleostei: Nemacheilidae), from Yunnan, China. Journal of Fish Biology 90: 834–846
11. Lan-Ping Zheng, Jun-Xing Yang*, Xiao-Yong Chen*. 2016. Garra incisorbis, a new species of labeonines from Pearl River basin in Guangxi, China (Teleostei: Cyprinidae). Ichthyological Exploration of Freshwaters 26(4): 299-303
12. Shu-wei Liu, Jun-Xing Yang*, Xiao-Yong Chen*. 2016. Paralepidocephalus translucens, a new cave species of loach from a cave in Yunnan, China (Teleostei Cobitidae). Ichthyological Exploration of Freshwaters 27(1): 61-66
13. Zheng L-P, Chen X-Y*, Yang J-X*. 2016. Molecular systematics of the Labeonini inhabiting the karst regions in southwest China (Teleostei, Cypriniformes). ZooKeys 612: 133–148.
14. Lan-Ping Zheng, Jun-Xing Yang*, Xiao-Yong Chen*. 2016. Molecular phylogeny and systematics of the Barbinae (Teleostei: Cyprinidae) in China inferred from mitochondrial DNA sequences. Biochemical Systematics and Ecology 68 (2016): 250-259
15. Wan-Sheng Jiang, Tao Qin, Wei-Ying Wang, Ya-Peng Zhao, Shu-Sen Shu, Wei-Hong SONG, Jun-Xing Yang*, Xiao-Yong Chen*. 2016. What is the destiny of a threatened fish, Ptychobarbuschungtienensis, now that non-native weatherfishes have been introduced into Bita Lake, Shangri-La? Zoological Research 37 (5): 275-280
16. Shusen Shu, A.M.Maeda-Martínez, D.C. Rogers, Junxing Yang*, Xiaoyong Chen*. 2015. Morphological characterization of Streptocephalus sirindhornae (Branchiopoda: Anostraca) from South East Asia: First record of the Streptocephalidae from China. Zootaxa. 3911 (3): 447–450
17. Du LN, Lu YF, Chen XY*. 2015. Yunnanilus qujinensis, a new species of loach from Yunnan, southwest China (Teleostei: Nemacheilidae). Ichthyological Exploration of Freshwaters, 26(3): 249-254
18. Yanfei Huang, Junxing Yang*, Xiaoyong Chen*. 2014. Stenorynchoacrum xijiangensis, a new genus and a new species of Labeoninae fish from Guangxi, China (Teleostei: Cyprinidae). Zootaxa 3793 (3): 379–386
19. Mo Wang, Jun-Xing Yang*, Xiao-Yong Chen*. 2013. Molecular phylogeny and biogeography of Percocypris (Cyprinidae, Teleostei). PlosOne 8(6): e61827
20. Shu-Sen Shu, Wan-Sheng Jiang, Tony Whitten, Jun-Xing Yang*, Xiao-Yong Chen*. 2013. Drought and China’s Cave Species. Science 340: 272
21. Jiang W. S., Zhao Y. P., Wang W. Y., Yang J.X., Chen X. Y.*. 2013. Length-weight relationship and biological data of a threatened fish, Ptychobarbus chungtienensis (Tsao, 1964) in Bita Lake of Shangri-La, Yunnan, China. Journal of Applied Ichthyology 28(4): 1-4.
22. Min Rui, Jun-Xing Yang*, Xiao-Yong Chen*, Richard Winterbottom, Richard Mayden. 2012. Phylogenetic Relationships of the Genus Homatula (Cypriniformes: Nemacheilidae), with Special Reference to the Biogeographic History around the Yunnan-Guizhou Plateau. Zootaxa 3586: 78–94
23. Jiang Wan-Sheng, Heok Hee Ng, Jun-Xing Yang*, Xiao-Yong Chen*. 2012. A taxonomic review of the catfish identified as Glyptothorax zanaensis (Teleostei: Siluriformes: Sisoridae), with the descriptions of two new species. Zoological Journal of the Linnean Society 165: 363–389
24. Yang Jian, Jun Xing Yang*, Xiao Yong Chen*. 2012. A re-examination of the molecular phylogeny and biogeography of the genus Schizothorax (Teleostei: Cyprinidae) through enhanced sampling, with emphasis on the species in the Yunnan–Guizhou Plateau, China. Journal of Zoological Systematics and Evolutionary Research 50(3): 184-191
25. Zheng, L. P., J. X. Yang, X. Y. Chen*. 2012. A new species of Triplophysa (Nemacheilidae: Cypriniformes), from Guangxi, southern China. Journal of Fish Biology 80, 831–841
26. Chen Xiao-Yong, David A. Neely*. 2012. Schistura albirostris, a new nemacheiline loach (Teleostei: Balitoridae) from the Irrawaddy River drainage of Yunnan Province, China. Zootaxa 3586: 222–227
27. Yang Jian, Jun Xing Yang*, Xiao Yong Chen*. 2012. A re-examination of the molecular phylogeny and biogeography of the genus Schizothorax (Teleostei: Cyprinidae) through enhanced sampling, with emphasis on the species in the Yunnan–Guizhou Plateau, China. Journal of Zoological Systematics and Evolutionary Research50(3): 184-191
28. Zheng Lan–Ping, Jun–Xing Yang*, Xiao–Yong Chen*. 2012. Phylogeny of the Labeoninae(Teleostei, Cypriniformes) based on nuclear DNA sequences and implications on character evolution and biogeography. Current Zoology 58 (6): 837-850
29. Yang Jian, Maurice Kottelat, Yang Junxing*, Chen Xiaoyong*. 2012. Yaoshania and Erromyzon kalotaenia, a new genus and a new species of balitorid loaches from Guangxi, China (Teleostei: Cypriniformes). Zootaxa 3586: 173–186
30. Min Rui, Jun-Xing Yang*, Xiao-Yong Chen*, Richard Winterbottom, Richard Mayden. 2012. Phylogenetic Relationships of the Genus Homatula (Cypriniformes: Nemacheilidae), with Special Reference to the Biogeographic History around the Yunnan-Guizhou Plateau. Zootaxa 3586: 78–94
31. Xiao-Yong Chen, Maurice Kottelat, David A. Neely. 2011. Physoschistura yunnaniloides, a new species of loach from Myanmar (Teleostei: Nemacheilidae). Ichthyological Exploration of Freshwaters 22 (2): 169-178
32. Lan–Ping Zheng, Jun–Xing Yang*, Xiao–Yong Chen*, Wei–Ying Wang. 2010. Phylogenetic relationship of the Chinese Labeoninae (Teleostei, Cypriniformes) derived from two nuclear and three mitochondrial genes. Zoologica Scripta 39(6): 559–571
33. Bo Yang, Xiao-Yong Chen*, Jun-Xing Yang*. 2011. Non-native carp of the genus Cyprinus in Lake Xingyun, China, as revealed by morphology and mitochondrial DNA analysis. Biological Invasions13(1): 105-114
34. Yang Jian, Chen Xiaoyong*, Yang Junxing*. 2010. Molecular and morphological analysis of endangered species Gymnodiptychus integrigymnatus (Teleostei: Cyprinidae). Environmental Biology of Fishes 88(2): 189 – 199
35. Yang Jian, Chen Xiaoyong*, Yang Junxing*. 2009. The identity of Schizothorax griseus Pellegrin, 1931, with descriptions of three new species of schizothoracine fishes (Teleostei: Cyprinidae) fromChina.Zootaxa2006: 23–40.
36. Yan-E Jiang, Xiao-Yong Chen*, Jun-Xing Yang. 2008. Microrasbora Annandale, a new genus record in China, with descriptions of a new species (Teleostei: Cyprinidae) Environmental Biology of Fishes 83(3): 299 - 304
37. Li-Na Du, Xiao-Yong Chen*, Jun-Xing Yang*. 2008. A Review of the Nemacheilinae Genus Oreonectes Günther with Descriptions of two New Species (Teleostei: Balitoridae). Zootaxa 1729: 23–36
38. X. Y. CHEN, J. X. YANG . 2005. A New Blind Loach of Genus Triplophysafrom China . Journal of Fish Biology66 (3): 599-608.
39. Chen X Y, Yang J X. 2003. A Systematic Revision of “Barbodes” Fishes in China . Zoological Research, 24(5): 377-386.
40. Chen X Y, Yang J X. 2002. Cladistic analysis of the cyprinind subgenus Cyprinus (Mesocyprinus) Fang (Teleostei: Cyprinidae). Zoological Research23(3): 185-194.
41. Chen Xiao-Yong, Jun-Xing Yang, Yin-Rui Chen. 1999. A review of the cyprinoid fish genus BarbodesBleeker, 1859, from Yunnan, China, with descriptions of two new species. Zoological Studies,38(1): 82-88.陈小勇. 2013. 云南鱼类名录. 动物学研究 34 (4): 281-343