The invention discloses a transportation and quarantine method for improving domesticating survival rate of wild coreius guichenoti and rhinogobio ventralis. The method includes steps of 1), quarantine of country of origin: immersing in methylene blue and antibiotic to quarantine; exchange water and drug every day; 2), long-distance transportation: adding antibiotic and MS-222 to the transportation water; 3), domesticating quarantine: the quarantine drug is the same as that in the country of origin in early phase. Feeding biological bait to domesticate; evenly mixing artemisinin and naphthoquine phosphate in a paste in later period; 4), daily management: observing a fish body every day and observing main indexes of the water quality; 5), disease prevention and treatment: target to preventand treat body surface wound, phytosis, saprolegniasis, Ichthyophthiriasi and teniasis. The method is easy to carry out and simple in operation; the survival rate during the long-term transportation and quarantine period is effectively improved by over 90%; meanwhile, the method lays a foundation for the successful domestication in the next stage, thus the manual breeding work of the wild coreiusguichenoti and rhinogobio ventralis is smoothly carried out.