The invention discloses a preparation method of chrysotile nanotubes in direction arrangement, comprising the following steps: 1) placing NaOH solution in a hydrothermal reaction kettle; 2) preparing water solution doped with magnetic ions, adding the water solution in the hydrothermal reaction kettle; 3) separately weighting active MgO and nano-SiO2 powder according to a molar ratio of 3 to 2, adding the active MgO and nano-SiO2 powder in the hydrothermal reaction kettle in turn, then adding distilled water in the reaction system, adjusting the pH value of the reaction system to 11-13.8; 4) sealing the hydrothermal reaction kettle and placing the kettle in a magnetic field; meanwhile, heating the hydrothermal reaction kettle and keeping temperature to perform a reaction for 15-80h, cooling; then opening the cooled hydrothermal reaction kettle, sucking up the upper clear liquid slowly and adding distilled water slowly for washing until the washing water which is sucked up is neutral; then heating and drying the product after opening the kettle to obtain the nanotubes of the invention. The method is simple, and the produced chrysotile nanotubes are pure with a perfect crystal structure so that the method is applicable to the nano-assembly and can be used in the preparation of nano-submicron devices.