No you should not need to be concerned with it. I would suggest you use the command to convert the file system from FAT32 to NTFS.
To convert a volume to NTFS from the command prompt
1. Open Command Prompt. Click Start, point to All Programs, point to Accessories, and then click Command Prompt.
2. In the command prompt window, type: convert drive_letter: /fs:ntfs
For example, typing convert D: /fs:ntfs would format drive D: with the ntfs format. You can convert FAT or FAT32 volumes to NTFS with this command.