Is Round Up hurting the farmer's soil?

There remain many questions in the GMO arena regarding the use of glyphosate (Round Up) on fields where the GM crops are being grown.  Is the soil being damaged??  The NY Times raises this question in this article – http://www.nytimes.com/2013/09/20/business/misgivings-about-how-a-weed-killer-affects-the-soil.html?pagewanted=2&_r=0&src=mv